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Wax moths, Galleria mellonella Linnaeus, 1758 and Achroia grisella Fabricius, 1794 are the key pests of honeybee colonies worldwide. They cause wax comb damages which lead to colony perishing and absconding. To control these pests, their genetic background and evolution should be considered. In this study, genetic diversity and demographic history of 2 species of wax moth were explored based on mitochondrial genes (COI). Wax moths were collected from northeatern part of Thailand for morphological and DNA analyses. G. mellonella and A. grisella sequences from GenBank were included for genetic diversity and demographic history analyses (total of 80 and 26 sequences, respectively). Overall genetic diversity for A. grisella samples from Northeastern Thailand was relatively low (h = 0.467 ± 0.132 and π = 0.00150 ± 0.00042). Likewise, low genetic diversity was also observed in G. mellonella samples (h = 0.280 ± 0.101 and π = 0.00046 ± 0.00017). Among samples from different global regions, the haplotype and nucleotide diversity of A. grisella were 0.834 ± 0.050 and 0.00996 ± 0.00124, respectively. The haplotype and nucleotide diversity of G. mellonella were 0.709 ± 0.034 and 0.01084 ± 0.00279, respectively. The ML tree revealed that these 2 species were separated into 2 major clades (G. mellonella clade and A. grisella clade). All sequences corresponding to G. mellonella formed to a single monophyletic clade, while all the sequences corresponding to A. grisella formed another single monophyletic clade. Clade G. mellonella was divided into 4 subclades designated as Clade Gm1, Gm2, Gm3 and Gm4, whereas A. grisella clade was divided into 3 subclades designated as Clade Ag1, Ag2 and Ag3. The sum of squares deviation (SSD) and Harpending's raggedness index (rg) and the results of Tajima's D and Fu's Fs tests indicated population expansion was not found in either species. [ABSTRACT FROM AUTHOR]

Abstract Nutrition is a limiting feature of species evolution. The differences in nutritional requirements are the evolutionary result of differential adaptations to environmental changes, explaining differences in their ecological traits. Cnaphalocrocis medinalis and Cnaphalocrocis exigua, two related species of rice leaffolders, have similar morphology and feeding properties but different migration and overwintering behaviors. However, it is unclear whether they have evolved adult nutritional differentiation traits to coexist. To explore this issue, this study examined the effects of carbohydrates and amino acids on their reproductive and demographic parameters. The findings indicate that carbohydrate intake prolonged the longevity and population growth of two rice leaffolders, but amino acid intake promoted egg hatching only. However, nutrient deficiency made it impossible for C. medinalis to reproduce successfully and survive, but it did not affect C. exigua. The population expansion and survival of migratory C. medinalis relied on adult nutritional intake. Conversely, the nutrients necessary for C. exigua overwintering activity mostly came from the storage of larvae. The difference in nutritional requirements for population growth and survival between the two rice leaffolders partially explained their differences in migration and overwintering.

Simple Summary: This research represents the first analysis of the population genetics of the diplectanid monogenean Lamellodiscus echeneis, sampled from wild and cage-reared gilthead seabream Sparus aurata across fifteen locations in the Southern (Tunisia) and Northern (Italy and Spain) regions of the Mediterranean Sea. The comparison of the newly obtained dataset to previously published sequences of L. echeneis, and the phylogenetic trees based on the analysis of ITS rDNA, confirmed the presence of only one species in the Mediterranean Sea. The star-like haplotype network inferred by COI sequences suggested a recent population expansion of L. echeneis. This study provides insights into the genetic variation among L. echeneis populations and did not reveal a clear genetic structure throughout Tunisian, Italian, and Spanish localities, possibly due to significant gene flow between the populations facilitated by the dispersion potential of hosts. The diplectanid monogenean Lamellodiscus echeneis (Wagener, 1857) is a specific and common gill parasite of the gilthead seabream Sparus aurata Linnaeus, 1758, in the Mediterranean Sea. Few isolated molecular studies of this monogenean have been conducted, and its population structure and genetic diversity are poorly understood. This study represents the first analysis of the population genetics of L. echeneis, isolated from wild and cage-reared gilthead seabream from fifteen localities in both the Southern (Tunisia) and Northern (Italy and Spain) regions of the Mediterranean Sea, using nuclear ITS rDNA markers and a partial fragment of the mitochondrial gene cytochrome oxidase subunit I (COI). The phylogenetic trees based on the newly obtained dataset and the previously published sequences of L. echeneis corroborated the spread of only a single species throughout the Mediterranean Sea. The star-like haplotypes network, inferred by COI sequences, suggested a recent population expansion of L. echeneis. This is supported by the observed high haplotype diversity (Hd = 0.918) and low nucleotide diversity (Pi = 0.01595). Population structure-based AMOVA for two groups (the Adriatic Sea and the rest of the Mediterranean Sea) attributed 35.39% of the total variation to differences within populations, 16.63% to differences among populations within groups, and 47.99% to differences among groups. Fixation indices were significant, with a high FST value (0.64612), likely related to the divergence of the parasite populations from the Adriatic Sea and other Mediterranean regions. Phylogenetic analyses grouped all samples into the main clade corresponding to L. echeneis from several localities. This study provides insight into the genetic variation between L. echeneis populations, and did not show a clear genetic structure between populations of L. echeneis throughout Tunisian, Italian, and Spanish localities, which can be attributed to the considerable gene flow between the populations favoured by the potential for host dispersion within the Mediterranean Sea. Finally, haplotypes shared between wild and cage-reared hosts provided evidence for the potential for cross-infection between wild and farmed hosts in the Mediterranean Sea. [ABSTRACT FROM AUTHOR]

The genetic diversity found in natural populations is the result of the evolutionary forces in response to historical and contemporary factors. The environmental characteristics and geological history of Mexico promoted the evolution and diversification of plant species, including wild relatives of crops such as the wild pumpkins (Cucurbita). Wild pumpkin species are found in a variety of habitats, evidencing their capability to adapt to different environments. Despite the potential value of wild Cucurbita as a genetic reservoir for crops, there is a lack of studies on their genetic diversity. Cucurbita radicans is an endangered species threatened by habitat destruction leading to low densities in small and isolated populations. Here, we analyze Genotype by Sequencing genomic data of the wild pumpkin C. radicans to evaluate the influence of factors like isolation, demographic history, and the environment shaping the amount and distribution of its genetic variation. We analyzed 91 individuals from 14 localities along its reported distribution. We obtained 5,107 SNPs and found medium-high levels of genetic diversity and genetic structure distributed in four main geographic areas with different environmental conditions. Moreover, we found signals of demographic growth related to historical climatic shifts. Outlier loci analysis showed significant association with the environment, principally with precipitation variables. Also, the outlier loci displayed differential changes in their frequencies in response to future global climate change scenarios. Using the results of genetic structure, outlier loci and multivariate analyses of the environmental conditions, we propose priority localities for conservation that encompass most of the genetic diversity of C. radicans. [ABSTRACT FROM AUTHOR]

Nutrition is a limiting feature of species evolution. The differences in nutritional requirements are the evolutionary result of differential adaptations to environmental changes, explaining differences in their ecological traits. Cnaphalocrocis medinalis and Cnaphalocrocis exigua, two related species of rice leaffolders, have similar morphology and feeding properties but different migration and overwintering behaviors. However, it is unclear whether they have evolved adult nutritional differentiation traits to coexist. To explore this issue, this study examined the effects of carbohydrates and amino acids on their reproductive and demographic parameters. The findings indicate that carbohydrate intake prolonged the longevity and population growth of two rice leaffolders, but amino acid intake promoted egg hatching only. However, nutrient deficiency made it impossible for C. medinalis to reproduce successfully and survive, but it did not affect C. exigua. The population expansion and survival of migratory C. medinalis relied on adult nutritional intake. Conversely, the nutrients necessary for C. exigua overwintering activity mostly came from the storage of larvae. The difference in nutritional requirements for population growth and survival between the two rice leaffolders partially explained their differences in migration and overwintering. [ABSTRACT FROM AUTHOR]

The gray wolf (Canis lupus) population on the Iberian Peninsula was the largest in western and central Europe during most of the 20th century, with its size apparently never under a few hundred individuals. After partial legal protection in the 1970s in Spain, the northwest Iberian population increased to about 300 to 350 packs and then stabilized. In contrast to many current European wolf populations, which have been connected through gene flow, the Iberian wolf population has been isolated for decades. Here, we measured changes in genomic diversity and inbreeding through the last decades in a geographic context. We find that the level of genomic diversity in Iberian wolves is low compared with other Eurasian wolf populations. Despite population expansion in the last 50 years, some modern wolves had very high inbreeding, especially in the recently recolonized and historical edge areas. These individuals contrast with others with low inbreeding within the same population. The high variance in inbreeding despite population expansion seems associated with small-scale fragmentation of the range that is revealed by the genetic similarity between modern and historical samples from close localities despite being separated by decades, remaining differentiated from other individuals that are just over 100 km away, a small distance for a species with great dispersal capacity inhabiting a continuous range. This illustrates that, despite its demographically stable condition, the population would probably benefit from favoring connectivity within the population as well as genetic exchange with other European wolf populations to avoid excessive fragmentation and local inbreeding depression. [ABSTRACT FROM AUTHOR]

Four closely related Echinometra species exist in the Indo-Pacific region, but little is known about their population genetics in Taiwan, an area rich in marine biodiversity. Echinometra dominates the Douziping coral reef off Liuqiu Island, where urchin barrens are also present. To understand the relationship between Echinometra species and urchin barrens, we investigated the genetic diversity of Echinometra species in Taiwan by using a nondestructive DNA extraction method on the spines of sea urchins. Mitochondrial DNA results showed that E. sp. C is the dominant species in Taiwan, with relatively high interspecific genetic distance. The E. sp. C is the only species in Douziping, and its population is expanding in accordance with the significantly low R2 value, the significantly negative Fu's Fs values, and mismatch distribution analysis results. Gene flow estimates between the urchin populations in Taiwan and those in the neighbouring waters of Okinawa suggested that the Kuroshio Current could play an important role in Echinometra dispersal. This implies strongly connectivity between these populations. This study reports the first case of E. sp. C-associated urchin barrens in the tropics. [ABSTRACT FROM AUTHOR]

Phellinotus (Polyporales) is a common genus of wood-decay fungi in tropical and subtropical areas, endemic to the Seasonally Dry Tropical Forest (SDTF) biome. However, Phellinotus diversity remains unexplored, despite being a major threat to living trees. Therefore, this study is aimed at confirming and characterizing through morphological and molecular data the first isolates of Phellinotus teixeirae in Pithecellobium dulce (Fabaceae) trees (locally referred to as 'Chiminango') from the endangered Colombian SDTF biome. Fifteen fungal specimens were recovered from living P. dulce trees, in the urban area and at the Universidad del Valle campus, and classified as P. teixeirae based on taxonomical descriptors. Phylogenetic relationships were inferred from a four-loci dataset (ribosomal and gene-coding regions), including 82 taxa covering 3991 nucleotide positions. The analysis recovered seven highly supported (>90% bootstrapping) monophyletic taxa of the 'Phellinotus Clade', and confirmed the new distribution range of P. teixeirae (100% bootstrap support), which extends approx. 1000 km north in the Neotropics. Hierarchical stratified Analysis of MOlecular VAriance (AMOVA) provided a clear genetic distinction between species (70% of variation, p-value = 0.001) and low differentiation among country of origin within species (11%, p-value = 0.044). Discriminant Analysis for Principal Components (DAPC) indicated complex clustering including closely related species, probably a signal of recent radiation and weak species boundaries. Median-joining haplotype network analysis identified unique haplotypes, which may correlate with new host colonization and population expansion (Tajima's D ≤ −0.5). In conclusion, this study provides the first assessment of the genetic diversity of P. teixeirae in a novel geography (SDTP) and host tree (P. dulce). However, increasing the number of isolates remains critical to understand further the genus' distribution patterns and drivers of genetic diversity. [ABSTRACT FROM AUTHOR]

Context: Striostrea prismatica is a valuable native oyster found along the Eastern Pacific coast from Mexico to Peru. There is evidence of overexploitation of this natural resource. Thus, population genetic data can help in designing management strategies. Aims: This study aimed to assess the genetic diversity, population structure and demographic history of S. prismatica using nuclear and mitochondrial DNA markers. Methods: Oysters were collected from seven natural fishing banks in two biogeographic realms of the eastern Pacific Ocean. Inter-simple sequence repeat markers and partial sequences of the mitochondrial cytochrome c oxidase subunit I (COI), 12S rRNA (12S) and 16S rRNA (16S) genes were amplified by polymerase chain reaction and analysed. Key results: Nuclear data revealed high intraspecific genetic diversity, moderate to strong genetic differentiation among fishing banks and a subtle genetic structure among marine ecoregions. The analyses supported strong isolation by distance, but chaotic genetic patchiness was also detected. Mitochondrial data showed high haplotype diversity and evidence of a population expansion c. 25,000 years ago. Conclusions: Dispersal capacity, oceanographic features and historical factors can explain the levels of genetic diversity and the pattern of population differentiation and connectivity observed in S. prismatica. Implications: The information generated in this study will support future management plans for this fishing resource. This study aimed to assess the genetic diversity, population structure and demographic history of Striostrea prismatica , an ecologically and commercially important native oyster in Mexico, Ecuador and Peru, using nuclear and mitochondrial DNA markers. Nuclear data revealed high intraspecific genetic diversity and strong genetic differentiation. Mitochondrial data showed high haplotypic diversity, no genetic structure and a population expansion c. 25,000 years ago. [ABSTRACT FROM AUTHOR]

Simple Summary: The diversity and specificity of the genetic structures of rare and endemic endangered goose (Anser cygnoides) breeds continue to be significant focal points of global concern. In this study, the mitochondrial genome was sequenced from six endemic endangered goose breeds to compare and assess the genetic structures of the rare bird breeds (♂:♀ = 1:1). The research results show that there are 81 haplotypes among the six endemic endangered goose breeds in China. At the same time, a historical dynamic analysis of the migration of endemic endangered goose breeds was conducted. The Wright's fixation index of endemic endangered goose breeds in China is significantly lower than that of European goose breeds. This indicates that the adaptability of endangered breeds in China is relatively low, which can easily affect the long-term survival and reproductive ability of the population. The conservation and exploitation of waterfowl genetic resources leverage the intra- and inter-population variations to enhance the traits relevant to human interests. Hence, there is an urgent need to strategically plan and safeguard the genetic resources of Chinese goose breeds while also devising suitable protection strategies. The analysis of the genetic diversity and historical dynamics of endemic endangered goose breeds structure has attracted great interest. Although various aspects of the goose breed structure have been elucidated, there is still insufficient research on the genetic basis of endemic endangered Chinese goose breeds. In this study, we collected blood samples from Lingxiang White (LX), Yan (YE), Yangjiang (YJ), Wuzong (WZ), Xupu (XP), and Baizi (BZ) geese (Anser cygnoides) and used Sanger sequencing to determine the partial sequence of the cytochrome b (CYTB) gene in a total of 180 geese. A total of 117 polymorphic sites were detected in the 707 bp sequence of the mtDNA CYTB gene after shearing and correction, accounting for approximately 16.55% of the entire sequence. The AT content (51.03%) of the processed sequence was slightly higher than the GC content (48.97%), indicating a preference for purine bases. The YJ, YE, and WZ breeds had the highest population genetic diversity, with a haplotype diversity greater than 0.9 (Hd > 0.9) and average population nucleotide difference of 8.01 (K > 8.01). A total of 81 haplotypes were detected and divided into six major branches. Among the six goose breeds, there were frequent genetic exchanges among LX, YJ, YE, and WZ geese (Nm > 15.00). We analyzed the distribution of base-mismatch differences in goose breeds and tested their historical dynamics for neutrality in Tajima's D and Fu's Fs. For YJ and WZ geese, Tajima's D > 0, but the difference was not significant (p > 0.05). The actual values for the two breeds exhibited multimodal Poisson distributions. The population patterns of the WZ and YJ geese are purportedly relatively stable, and the breeds have not experienced population expansions or bottleneck effects, which is consistent with the neutrality test results. This study provides new insights into the diverse genetic origins and historical dynamics that sustain endemic endangered goose breeds. [ABSTRACT FROM AUTHOR]

Parapristipoma trilineatum is an edible and economically important marine fish with high farming potential; however, this fish has not been widely investigated. To understand the germplasm resources of this marine fish, we investigated the range of P. trilineatum from Maizuru, Japan, to Hainan, China. Using the mitochondrial control region as a molecular marker, we analyzed the population structure, genetic diversity, and population history dynamics of P. trilineatum. The control region exhibited high haplotype diversity and nucleotide diversity of 0.996 and 0.016, respectively. The genetic differentiation coefficients indicated low differentiation between Japanese and other populations. Additionally, based on the results of SAMOVA, AMOVA, and genetic differentiation coefficients, P. trilineatum can be divided into two management units in fishery resources management: China and Japan. Populations with high genetic diversity are useful as genetic breeding materials. This study provides a basis for the selection and breeding of P. trilineatum.

Here, we examine genetic diversity and dispersal patterns in populations of the agricultural pest Nezara viridula from Argentina using mitochondrial control region sequences.The DNA sequence comparisons of 1837 base pairs of the control region revealed 60 haplotypes determined by a total of 108 variable sites. The observed total haplotype diversity (Hd) value was 0.99, and the nucleotide diversity was 0.00423 and 0.00571 according to π and θW, respectively.The high haplotype diversity and low nucleotide diversity, as well as both neutrality tests and unimodal mismatch distributions, suggested a recent expansion in the populations of N. viridula from Argentina. The expansion of the populations of this insect is probably due to the recent agricultural expansion and intensification of soybean cultivation in this country.No significant levels of genetic differentiation were detected, suggesting that gene flow predominates over genetic drift. In addition, the Bayesian individual assignment analysis revealed that all populations share ancestry. It is probable that the growth in the area cultivated with soybean has generated stable and continuous habitats that allow gene flow among populations of N. viridula.The results of demographic history analysis suggest that the direction of migration of N. viridula would be associated with the growth pattern of soybean crops in Argentina. [ABSTRACT FROM AUTHOR]

Kelp Gull is the most abundant gull species in the Southern Hemisphere, occurring in South America, Africa, New Zealand, Australia, Sub-Antarctic Island, and Antarctica Peninsula. There is no consensus about the number of subspecies; some studies proposed two and others six subspecies. Previous genetic studies with this species show low genetic diversity at mtDNA, in contrast to the high variability found in the nuclear gene. Thus, this study proposed to evaluate the subspecies of Kelp Gull through mtDNA, recovering the demographic history and population genetic structure throughout the South Hemisphere. For this, we sequenced Cytochrome b in 98 samples of Kelp Gull from Brazil, Argentina, and Antarctica, and added to the dataset 20 haplotypes available in GenBank. Bayesian Phylogeny did not support a clade in any subspecies proposed. However, it is possible to observe the genetic population structure of Kelp Gull in the Southern Hemisphere based on haplotype frequency. In addition, there is evidence that Kelp Gull lost genetic diversity, following population expansion during Holocene around 2500–3000 years ago. [ABSTRACT FROM AUTHOR]

The diplectanid monogenean Lamellodiscus echeneis (Wagener, 1857) is a specific and common gill parasite of the gilthead seabream Sparus aurata Linnaeus, 1758, in the Mediterranean Sea. Few isolated molecular studies of this monogenean have been conducted, and its population structure and genetic diversity are poorly understood. This study represents the first analysis of the population genetics of L. echeneis, isolated from wild and cage-reared gilthead seabream from fifteen localities in both the Southern (Tunisia) and Northern (Italy and Spain) regions of the Mediterranean Sea, using nuclear ITS rDNA markers and a partial fragment of the mitochondrial gene cytochrome oxidase subunit I (COI). The phylogenetic trees based on the newly obtained dataset and the previously published sequences of L. echeneis corroborated the spread of only a single species throughout the Mediterranean Sea. The star-like haplotypes network, inferred by COI sequences, suggested a recent population expansion of L. echeneis. This is supported by the observed high haplotype diversity (Hd = 0.918) and low nucleotide diversity (Pi = 0.01595). Population structure-based AMOVA for two groups (the Adriatic Sea and the rest of the Mediterranean Sea) attributed 35.39% of the total variation to differences within populations, 16.63% to differences among populations within groups, and 47.99% to differences among groups. Fixation indices were significant, with a high FST value (0.64612), likely related to the divergence of the parasite populations from the Adriatic Sea and other Mediterranean regions. Phylogenetic analyses grouped all samples into the main clade corresponding to L. echeneis from several localities. This study provides insight into the genetic variation between L. echeneis populations, and did not show a clear genetic structure between populations of L. echeneis throughout Tunisian, Italian, and Spanish localities, which can be attributed to the considerable gene flow between the populations favoured by the potential for host dispersion within the Mediterranean Sea. Finally, haplotypes shared between wild and cage-reared hosts provided evidence for the potential for cross-infection between wild and farmed hosts in the Mediterranean Sea.

Propylea japonica (Coleoptera: Coccinellidae) is a natural enemy insect with a wide range of predation in Chinese mainland and is commonly used in pest management. However, its genetic pattern (i.e., genetic variation, genetic structure, and historical population dynamics) is still unclear, impeding the development of biological control of insect pests. Population genetic research has the potential to optimize strategies at different stages of the biological control processes. This study used 23 nuclear microsatellite sites and mitochondrial COI genes to investigate the population genetics of Propylea japonica based on 462 specimens collected from 30 sampling sites in China. The microsatellite dataset showed a moderate level of genetic diversity, but the mitochondrial genes showed a high level of genetic diversity. Populations from the Yellow River basin were more genetically diverse than those in the Yangtze River basin. Propylea japonica has not yet formed a significant genealogical structure in China, but there was a population structure signal to some extent, which may be caused by frequent gene flow between populations. The species has experienced population expansion after a bottleneck, potentially thanks to the tri-trophic plant–insect–natural enemy relationship. Knowledge of population genetics is of importance in using predators to control pests. Our study complements existing knowledge of an important natural predator in agroecosystems through estimating its genetic diversity and population differentiation and speculating about historical dynamics.

In Central and Eastern Europe, wolf populations have been increasing over the last two decades, recolonizing areas from which the species had been previously exterminated. As wolves are still recovering after years of persecution by humans, recognizing pathogens infecting this species, including tick-borne infections, is crucial for its conservation. On the other hand the high mobility of wolves and their frequent contacts with humans, dogs, and other domestic species make them a potentially important zoonotic reservoir. In this paper, we used molecular methods to determine the prevalence of tick-borne pathogens in the following genera: Anaplasma, Babesia, Bartonella, Borrelia, and Rickettsia in 50 free-ranging wolves from Poland. We detected Babesia canis in the blood of nine individuals (prevalence 9/50=18 %). The obtained sequence showed the highest similarity to B. canis isolated from dogs and ticks, and all infected individuals originated from regions endemic to the ornate tick, Dermacentor reticulatus. Anaplasma phagocytophilum was found in tissue from one individual (1/50=2 %), and the sequence was assigned to the zoonotic ecotype I.

The spotted seal (Phcoa largha) is the only pinniped species reproducing in the wild in China. Wild populations of this species have declined sharply in China due to anthropogenic impacts. Forty-six individuals died accidentally in Liaodong Gulf between 2018 to 2020 and were collected. The genetic diversity and population structure of this population were investigated using mitochondrial ND4L and D-loop sequences, and the results were compared with the same population in 2005. The haplotype diversity of Liaodong Gulf spotted seals was low compared to other spotted seal populations in other habitats. Fortunately, the genetic diversity of the current Liaodong Gulf spotted seal population was higher than 15 years ago, and the population expanded between 2005 and 2020. Our findings indicated that conservation activities for Liaodong Gulf spotted seals in recent decades have been valuable, and should persist in the future. [ABSTRACT FROM AUTHOR]

The genus Limia is endemic to the Greater Antilles with a single species in Cuba, Limia vittata , widespread in lowland ecosystems. The limited data available regarding its population structure suggest that its levels of intraspecific divergence are lower compared to other Cuban poeciliids. Furthermore, little is known about the dispersal pathways and demographic changes experienced by present-day populations. By analysing two mitochondrial markers and testing scenarios of dispersal and vicariance, we provide insights into the evolutionary history of L. vittata. Here, we show that this species is formed by three genetically differentiated and geographically delimited groups of populations. We also found moderate intraspecific divergence and a mtDNA pattern of high haplotype diversity and low nucleotide diversity which is consistent with a rapid demographic expansion. Our Bayesian analysis recovered dispersal from eastern to western Cuba as the most likely scenario explaining the current distribution of this species. Limia vittata exhibited a distinct regional distribution of haplogroups that corresponds to major core landmasses within Cuba, along with a signature of rapid population expansion during relatively recent palaeoclimatic changes that occurred during the formation of the archipelago. Similar phylogeographic patterns have been identified in other freshwater and terrestrial taxa on the island. [ABSTRACT FROM AUTHOR]

As an economically important herbivorous fish, the range of grass carp (Ctenopharyngodon idella) has expanded in the world and its ecological influences have become more evident. Currently, we have embarked on assessing the effect of grass carp on aquatic organisms and water quality by integrating the outcomes from previous ecological studies. Bibliographical data integration shows that aquatic plant preference is likely to be related to the cellulose proportion, calcium, sucrose and citric acid of the aquatic plant. Moreover, pharyngeal teeth and multiple gene copies of taste receptors could help reveal the feeding mechanism of grass carp. The expansion of the number of sweet‐detecting T1R2 genes, and the functional potential of Umami taste receptor T1R3 by calcium‐regulation was speculated on the basis of previous experimental observations of grass carp, suggesting that aquatic plant consumption by this species is tightly associated with the taste receptors. Apart from the competition in living space between grass carp and other fish, the effects of consuming zooplankton and zoobenthos were summarized to reveal general passive feeding of grass carp, as well as the feeding choice in the absence of aquatic plants. Water quality data were gleaned to make comparative analyses between groups stocking with and without grass carp to uncover changes in water physicochemical parameters in short‐ (<1 year) and long‐term impacts. This review provides insight into the grass carp feeding behaviour and mechanisms and it will help find a balance between ecological harmony and the industrial development of grass carp. [ABSTRACT FROM AUTHOR]

China is rich in goat breeding resources. Officially recognized local goat breeds are mainly distributed in agro‐ecological regions. The population structure and matrilineal origin of native Chinese goats can be used to formulate protection and utilization strategies for these genetic resources. In this study, the genetic structure and maternal origin of native Chinese goats were investigated using mtDNA D‐loop sequences. A total of 329 goat samples from 25 Chinese indigenous goat populations and five introduced goat breeds from abroad were collected; these populations were distributed in four ecogroups designated as Southwest, South‐central, the North China Plain, and Foreign‐ecogroup. A larger average number of nucleotide differences and richer nucleotide diversity were observed in South‐central and Foreign‐ecogroup, whereas these were lower in Southwest. The 216 haplotypes divided into several haplogroups, of which HapA contained 99 haplotypes distributed in Southwest, the North China Plain, and Foreign‐ecogroup with high frequency (0.53–0.77), whereas the frequency of HapA in South‐central was <0.09. HapB was mostly found in South‐central (0.5538) and was distributed to the North China Plain (0.2667), while it was rare in Southwest (<0.08) and Foreign‐ecogroup (<0.07). According to the estimation of kinship and ancestry, HapA had five ancestors (A2, A3, A5, A10, and A12), HapB had a single maternal ancestor (A8), and HapC had two maternal ancestors (A1 and A4). This study showed that native Chinese goat breeds were mainly divided into three haplogroups (HapA, HapB, and HapC) and goat populations have expanded in the ecological regions. [ABSTRACT FROM AUTHOR]

A comprehensive understanding of phylogeography requires the integration of knowledge across different organisms, ecosystems, and geographic regions. However, a critical knowledge gap exists in the arid biota of the vast Asian drylands. To narrow this gap, here we test an "out-of-Central Asia" hypothesis for the desert scorpion Mesobuthus mongolicus by combining Bayesian phylogeographic reconstruction and ecological niche modeling. Phylogenetic analyses of one mitochondrial and three nuclear loci and molecular dating revealed that M. mongolicus represents a coherent lineage that diverged from its most closely related lineage in Central Asia about 1.36 Ma and underwent radiation ever since. Bayesian phylogeographic reconstruction indicated that the ancestral population dispersed from Central Asia gradually eastward to the Gobi region via the Junggar Basin, suggesting that the Junggar Basin has severed as a corridor for Quaternary faunal exchange between Central Asia and East Asia. Two major dispersal events occurred probably during interglacial periods (around 0.8 and 0.4 Ma, respectively) when climatic conditions were analogous to present-day status, under which the scorpion achieved its maximum distributional range. M. mongolicus underwent demographic expansion during the Last Glacial Maximum, although the predicted distributional areas were smaller than those at present and during the Last Interglacial. Development of desert ecosystems in northwest China incurred by intensified aridification might have opened up empty habitats that sustained population expansion. Our results extend the spatiotemporal dimensions of trans-Eurasia faunal exchange and suggest that species' adaptation is an important determinant of their phylogeographic and demographic responses to climate changes. [ABSTRACT FROM AUTHOR]

The Eurasian Spoonbill Platalea leucorodia is currently experiencing an increasing population trend in Western Europe and colonising areas in its breeding range. In this study we assessed the diet and trophic ecology of spoonbill chicks in Portuguese colonies (Ria Formosa and Tagus Estuary) occupied at different years during the population expansion in the country. We accomplished this by combining diet analysis with blood and feather stable isotopic analysis. Spoonbills from the Portuguese colonies relied mainly (but not exclusively) on crustaceans (Ria Formosa = 75%, Tagus Estuary = 72.5%) and fish (Ria Formosa = 17.11%, Tagus Estuary = 37.50%) to feed their chicks. Crustaceans seems to be the most important prey group. Nevertheless, chicks from Ria Formosa were fed with prey from a higher trophic level than chicks from Tagus Estuary. In both colonies chicks were fed with available in habitats near the colony, although in Tagus Estuary most prey originated from freshwater habitats. Diet of chicks remained constant through the development period and the proportions of crustaceans and fish consumed differed from other colonies elsewhere in Western Europe (Spain and the Netherlands). We conclude that in Portugal, spoonbills feed their chicks with prey commonly found in the vicinity of colonies. Prey originating from artificial habitats, particularly the invasive Louisiana crayfish Procambarus clarkii in the more recently occupied colony, were the most important items in the diet of chicks. [ABSTRACT FROM AUTHOR]

The genetic diversity, structure, and demographic history of the economically important and overfished Gadidae species Merlangius merlangus were investigated using the non-coding mitochondrial Control Region (CR) from five different sites in the Sea of Marmara and the Black Sea in Turkey. The populations of M. merlangus were found to be genetically diverse, with 14 haplotypes and 15 polymorphic regions. The overall haploid diversity was 0.910 ± 0.024, and the nucleotide diversity was 0.003 ± 0.0003. Genetic distances between populations varied between 0.13% and 8.02%, while genetic distances within M. merlangus populations varied between 0.09% and 0.42%. Principle Coordinates Analysis showed that Marmara, Black Sea, and Karadeniz Ereğli populations were clearly separated. Pairwise FST values varied from 0.12 to 0.69, highlighting high genetic variation among populations. The Black Sea and Marmara lineages of M. merlangus diverged from the North Sea lineage 1.65 (1.08-2.29) mya, whereas the separation between the Atlantic lineage occurred about 0.84 (0.51-1.2) mya. The recent expansion of the whiting population was identified through neutrality tests and mismatch distribution analyses. This study provides important insight into the genetic structure, conservation, and management of this species. [ABSTRACT FROM AUTHOR]

Aim: The drivers of genetic diversity in Amazonia, the most species‐rich set of ecosystems on Earth, are still incompletely understood. Species from distinct Amazonian ecosystems have unique biogeographic histories that will reflect regional landscape and climatic drivers of genetic diversity. We studied bird species from patchy Amazonian white‐sand ecosystems (WSE) to evaluate the occurrence of shared biogeographic patterns to better understand the complex environmental and landscape history of Amazonia and its biodiversity. Location: Northern South America; Amazonia. Taxon: Passeriformes. Methods: We sequenced Ultra‐conserved Elements (UCEs) from 177 samples of seven bird species associated with WSE that have overlapping ranges. We used the SNP matrices and sequence data to estimate genetic structure and migration surfaces using 'conStruct' and eems, performed model‐selection to obtain the most probable demographic histories on 'PipeMaster' and implemented analyses of shared demography with ecoevolity. Results: Shallow genetic structure patterns varied among species. The Amazon river was the only barrier shared among them. Population structure dates to no more than 450,000 years ago. Nine geographically structured populations showed signals of population size changes and eight of these occur in Northern Amazonia. Population expansion was inferred at two distinct times: ~100,000 and ~ 50,000 years ago. The timing of co‐expanding populations is consistent with differences in habitat preference, as species that prefer dense scrubby to forested vegetation expanded more recently compared to species that prefer open vegetation. Main conclusions: WSE species responded in concert to environmental and landscape changes that occurred in the relatively recent past. Population expansions were likely driven by the genesis of new WSE patches and a return to wetter conditions after glacial periods. Pleistocene climatic cycles affected the distribution and dynamics of open vegetation habitats in Amazonia, especially in the Northern region, driving genetic diversity and demographic patterns of its associated biota. [ABSTRACT FROM AUTHOR]

The stone marten (Martes foina) is a small carnivore distributed from Europe to Central Asia. To investigate its phylogeography, we sequenced part of the mitochondrial control-region (485 bp) for 30 individuals from 26 localities broadly covering the species range across continental Eurasia. We identified 16 haplotypes, which comprised two major groups along with the previously reported haplotypes: the Major Eurasian group that included haplotypes widely distributed from Europe to Central Asia, and the Eastern Turkey group containing haplotypes restricted to eastern Turkey. Our phylogeographic and demographic analyses indicated a recent population expansion for the Major Eurasian group, but no clear evidence for the Eastern Turkey group. Our results also suggested that the refugial M. foina population on the Balkan Peninsula expanded to Western Turkey, most of Europe, and Central Asia since the Last Glacial Maximum due to the lack of significant geographical barriers, although the small number of samples limits our understanding of the overall phylogeography. On the other hand, this assumption does not exclude the possibility that some of the central Asian populations in the Major Eurasian group could have originated from somewhere in central Asia. [ABSTRACT FROM AUTHOR]

Mountains are renowned for their bountiful biodiversity. Explanations on the origin of such abundant life are usually regarded to their orogenic history. However, ancient mountain systems with geological stability also exhibit astounding levels of number of species and endemism, as illustrated by the Brazilian Quartzitic Mountains (BQM) in Eastern South America. Thus, cycles of climatic changes over the last couple million years are usually assumed to play an important role in the origin of mountainous biota. These climatic oscillations potentially isolated and reconnected adjacent populations, a phenomenon known as flickering connectivity, accelerating speciation events due to range fragmentation, dispersion, secondary contact, and hybridization. To evaluate the role of the climatic fluctuations on the diversification of the BQM biota, we estimated the ancient demography of distinct endemic species of animals and plants using hierarchical approximate Bayesian computation analysis and Ecological Niche Modelling. Additionally, we evaluated if climatic oscillations have driven a genetic spatial congruence in the genetic structure of codistributed species from the Espinhaço Range, one of the main BQM areas. Our results show that the majority of plant lineages underwent a synchronous expansion over the Last Glacial Maximum (LGM, c. 21 thousand years ago), although we could not obtain a clear demographic pattern for the animal lineages. We also obtained a signal of a congruent phylogeographic break between lineages endemic to the Espinhaço Range, suggesting how ancient climatic oscillations might have driven the evolutionary history of the Espinhaço's biota. [ABSTRACT FROM AUTHOR]

The origin of humans has been a subject of intense debate for many centuries. The two main approaches to this subject are materialistic and metaphysical. The materialist view suggests that humans evolved from non-human primates through the process of natural selection, while the metaphysical view suggests that humans were created by a divine entity or a supernatural force. According to materialists, their view is based on the scientifi c theory of evolution, which suggests that all living organisms, including humans, descend from a common ancestor. According to this theory, the process of natural selection drives the development of species over time and those individuals, with traits best suited to their environment, are more likely to survive and reproduce. Recent studies have provided convincing evidence for the descent with modification of humans from non-human primates, including genetic similarities, fossil evidence and anatomical comparisons. In contrast, the metaphysical view states that humans were created by a divine entity or a supernatural force. This view is often associated with religious beliefs and (according to its opponents) is not based on empirical evidence. For the origin of life there is a clear twofold requirement: firstly, a blueprint (plan) that determines how the organism will function (such as deoxyribonucleic acid (DNA) or ribonucleic acid (RNA)) and secondly a mechanism with a metabolic system to interpret the blueprint and functionally organise the proteins as described by the DNA or RNA. This is a classic “chickenegg” situation, because for life to arise, a blueprint is needed according to which the first organism will be produced, while at the same time an organism is needed to produce the first blueprint. All living matter (biomolecules such as nucleic acids, proteins and lipids) consist of the same macro-nutrients, namely, carbon, hydrogen, nitrogen, oxygen, phosphate, and sulphur, of which carbon and water are the most essential. These shared building materials are signs of a common origin, which is confirmed in genetics by aspects such as shared cell design, genetic code, protein systems, as well as DNA, mRNA (messenger ribonucleic acid), and protein functions. The interconnectedness is especially clear where variations occur, such as changes through mutations which accumulate in the genome, especially in pseudogenes, where shared mutations then indicate shared ancestry; where retroviruses leave a copy (deactivated so-called “junk” genes) in the DNA of infected organisms, from which it is transmitted to the offspring to indicate relationships; and the sharing of parallel genes by some metazoa that indicate relationships. From a total of 6.1 billion prokaryotic protein-coding genes, 355 protein clusters have been identified that are shared by all prokaryotes. According to this, LUCA (last universal common ancestor) could successfully inhabit anaerobic hydrothermal vents on the sea floor in a H2, CO2 and iron-rich environment. This finding is consistent with the oldest evidence of life, namely microbial mats of bacteria and archaea that were the dominant life form during the earliest times of life on earth. Development and specialisation occurred during times of accelerated biodiversity, of which the Cambrian “explosion” was exceptional in scope and depth. DNA comparisons show that the phyla of the animal kingdom split into three groups, about 50 million years before the Cambrian period. The presence of complex DNA in all three groups that shared many characteristics, makes a complex ancestor a necessity. This indicates that the Cambrian biodiversifi cation was driven by selection from the loaded genetic potential space of a single, shared ancestor. As a species, human DNA shows a much lower diversity than the genetic theory predicts, mainly due to its recency as well as the occurrence of a “population bottleneck”, as indicated by the presence of a fusion chromosome. This fusion chromosome that once formed in a specific person, has become a shared chromosome of the entire human race. It is therefore currently generally accepted that the entire human population evolved from a very small group less than 160,000 years ago, possibly in Africa. Subsequently, through selection pressure, an identifi able gap, not only in form but especially in function, has arisen in modern humankind. The biblical narrative of Adam and Eve meets all the requirements for the threshold event that has been scientifi cally distinguished. In the Bible, it is said that God created man from the dust of the earth – in His image He created him. That humans have a common ancestor with monkeys seems to be true, just like with every organism on earth. We share much more than just ancestors with the rest of creation as was already stated, also building material, cells, organs, and a large part of our genome. That humans are unique in nature is, however, undeniable, and contemporary science cannot account for many empirical observations in this regard. It is therefore hypothesised that proto-man was created by guided development from the substance of the earth (carbon, hydrogen, nitrogen, oxygen, phosphate and sulphur). Later, a threshold event occurred (as described in Genesis) during which God transformed the protoman “in His image”. God guided human’s minds far beyond survival requirements to develop a language-processed, secondary memory, enabling humankind to receive and internalise love, wisdom, and morality. These are unique attributes of God that make humankind the image of God. Of the change of proto-man’s mind and his behaviour to modern humankind during the threshold event, there is ample scientifi c evidence. This could confi rm the paradise narrative as a verifi able reality, as does Eve’s creation from Adam. Modern scientifi c observations regarding the origin of the universe, the development of life and the origin of humans can be best understood when they are interpreted within a religious paradigm. Arno Penzias, physicist, and Nobel laureate is one of many scientists who conclude that the scientific evidence is consistent with the expectations flowing from theism. He writes: “The best data we have is exactly what I would have predicted, had I nothing to go on but the fi ve books of Moses, the Psalms, the Bible as a whole.” [ABSTRACT FROM AUTHOR]

Tagetes minuta L. is native to the temperate grasslands and relatively high-altitude areas of South America. In 1990, it was first discovered in the Beijing Botanical Garden in China. In 1994, Pema Dawa introduced the species as a Tibetan medicine from the mountains of northern India to his courtyard in Gangjiang Village, Wolong Town, Milin County. Around 2010, scholars discovered that Tagetes minuta L. was widely invasive, which aroused extensive social concern. Featuring small weight, large number, and awns, Tagetes minuta L., is easy to spread and has a high seed germination rate, with 20% of the reproductive investment. The plant is tolerant of barrenness and drought and adapts to climates with large diurnal temperature differences and strong light conditions. Rich in aromatic substances and essential oils, the leaves and flowers serve medicinal, food, flavoring, health care and cosmetic purposes. Thiophene in the roots and bioactive components in the essential oil have anti-inflammatory, sterilizing, insect-repellent, and fly control effects, with significant allelopathy on native species. The biological and ecological characteristics of Tagetes minuta L. lay the material basis for its population spread. According to Tibetan folklore, we suggest using physical methods or biological control techniques for ecological control and strengthening the research of development and application to guide its economic benefits in Tibetan Buddhist supplies. [ABSTRACT FROM AUTHOR]

Abstract China is rich in goat breeding resources. Officially recognized local goat breeds are mainly distributed in agro‐ecological regions. The population structure and matrilineal origin of native Chinese goats can be used to formulate protection and utilization strategies for these genetic resources. In this study, the genetic structure and maternal origin of native Chinese goats were investigated using mtDNA D‐loop sequences. A total of 329 goat samples from 25 Chinese indigenous goat populations and five introduced goat breeds from abroad were collected; these populations were distributed in four ecogroups designated as Southwest, South‐central, the North China Plain, and Foreign‐ecogroup. A larger average number of nucleotide differences and richer nucleotide diversity were observed in South‐central and Foreign‐ecogroup, whereas these were lower in Southwest. The 216 haplotypes divided into several haplogroups, of which HapA contained 99 haplotypes distributed in Southwest, the North China Plain, and Foreign‐ecogroup with high frequency (0.53–0.77), whereas the frequency of HapA in South‐central was

Abstract Ticks are the second most important vector capable of transmitting diseases affecting the health of both humans and animals. Amblyomma testudinarium Koch 1844 (Acari: Ixodidae), is a hard tick species having a wide geographic distribution in Asia. In this study, we analyzed the composition of A. testudinarium whole mitogenomes from various geographical regions in Japan and investigated the population structure, demographic patterns, and phylogeographic relationship with other ixodid species. In addition, we characterized a potentially novel tick species closely related to A. testudinarium from Myanmar. Phylogeographic inference and evolutionary dynamics based on the 15 mitochondrial coding genes supported that A. testudinarium population in Japan is resolved into a star‐like haplogroup and suggested a distinct population structure of A. testudinarium from Amami island in Kyushu region. Correlation analysis using Mantel test statistics showed that no significant correlation was observed between the genetic and geographic distances calculated between the A. testudinarium population from different localities in Japan. Finally, demographic analyses, including mismatch analysis and Tajima’s D test, suggested a possibility of recent population expansion occurred within Japanese haplogroup after a bottleneck event. Although A. testudinarium has been considered widespread and common in East and Southeast Asia, the current study suggested that potentially several cryptic Amblyomma spp. closely related to A. testudinarium are present in Asia.

The phylogeography of the Altai weasel (Mustela altaica) based on mitochondrial control-region sequences was investigated using samples from individuals obtained widely across the species range, including Central Asia, Tibet and southern Siberia. Thirty-four haplotypes were identified among 53 individuals from 32 localities. A maximum-likelihood phylogenetic tree for haplotypes showed two major clades, clades I and II. Clade I contained haplotypes from northern Eurasia, including the continental Far East, Altai Mountains and eastern Kazakhstan. Clade II comprised two subclades: group IIa, with haplotypes from around the Pamir Mountains, and the poorly supported group IIb, with haplotypes from the Tibetan Plateau. High haplotype diversity and low nucleotide diversity for clade I suggest that the range of M. altaica expanded over a relatively short period in northern Eurasia. High haplotype and nucleotide diversity for clade II indicate a longer-term, more stable population resulting from geographical isolation of individuals on the Tibetan Plateau by surrounding mountain ranges. Our study suggests that the ancestral population of M. altaica migrated into Tibet from the outside and has diversified in Tibet, seemingly not supporting the 'out-of-Tibet' hypothesis; however, we could not completely refute this hypothesis because an individual having a group IIb haplotype was detected in Mongolia. [ABSTRACT FROM AUTHOR]

Barley (Hordeum vulgare L.) is the most important cereal crop in the Qinghai-Tibet Plateau, and the yield has been seriously threatened by Blumeria graminis f. sp. hordei (Bgh) in recent years. To understand the virulence and genetic traits of different Bgh populations, 229 isolates of Bgh were collected from Tibet, Sichuan, Gansu and Yunnan provinces of China during 2020 and 2021, and their pathogenicity to 21 barley lines of different genotypes was assessed. A total of 132 virulent types were identified. The Bgh isolates from Yunnan showed the highest diversity in terms of virulence complexity (Rci) and genetic diversity (KWm), followed by those from Sichuan, Gansu, and Tibet, in that order. Single nucleotide polymorphism (SNP) in genes coding for alternative oxidase (AOX), protein kinase A (PKA), and protein phosphatase type 2A (PPA) were detected at seven polymorphic sites. Nine haplotypes (H1-H9) with an average haplotype diversity (Hd) and nucleotide diversity π of 0.564 and 0.00034, respectively, were observed. Of these, haplotypes H1 and H4 accounted for 88.8% of the isolates, and H4 was predominant in Tibet. Genetic diversity analysis using the STRUCTURE (K = 2) and AMOVE indicated that the inter-group variation accounted for 54.68%, and inter- and intra-population genotypic heterogeneity accounted for 23.90% and 21.42%, respectively. The results revealed the recent expansion of the Bgh population in Tibet, accompanied by an increase in virulence and a loss of genetic diversity. [ABSTRACT FROM AUTHOR]

Understanding the population history of wide-ranging species, especially those ranging over varying landscapes, helps in deciphering the evolutionary force (s) that shaped the present genetic diversity/structure of regional fauna. In the shelf region, evolution of coastal morphology through glacial oscillations played an important role in shaping the contemporary genetic structure of coastal marine organisms, although the type and extent of such influence may differ between ecologically dissimilar species, such as marine mammals vs. other marine vertebrates. We reconstructed the demographic trajectories of four populations of the finless porpoise (Neophocaena spp.), covering a wide latitudinal range in the western Pacific and using coalescent-based techniques. Subsequently, we compare the findings with the evolution of suitable ecological niche by reconstructing historic sea level fluctuations with a maximum entropy method. Our results indicate that the finless porpoise was distributed along the continental slope during the low stand of sea level, while the post-glacial marine transgression enabled the porpoise to re-colonize a vast region of the shelf, leading to the most recent expansion of the genus in east Asia. We underscore that inferences of past demographic events are sensitive to the evolutionary model of microsatellite loci and the proportion of multi-step mutation. For coastal cetaceans inhabiting complex coastal habitats, caution has to be exercised when examining demographic parameters to prevent biased inferences due to historic gene flow during marine transgression. Systematic sampling scheme should be encouraged for rigorous quantification of demographic parameters, which may be further applied to more adaptable methods such as approximate Bayesian computation. [ABSTRACT FROM AUTHOR]

Genetic diversity, population structure, and population expansion of goats worldwide (4 165 individuals from 196 breeds) were analyzed using published mitochondrial DNA (mtDNA) D_loop hypervariable region sequences. Results showed that 2 409 haplotypes and 301 polymorphic sites were present within the 401-bp length D_loop region, the nucleotide diversity (Pi) was 0.03471, and the haplotype diversity (Hd) was 0.9983. Phylogenetic analysis revealed that 98.92% of haplotypes were divided into six obvious clusters, consistent with the classification of the known mitochondrial haplogroups of goats. Haplogroup A accounted for the largest proportion (86%). Interestingly, two unknown divisions (Unknown I and Unknown II) were discovered from goats in Southwest China, suggesting that Southwest China has unique maternal haplogroups. Analysis of molecular variance (AMOVA) and the average number of pairwise differences between populations (PiXY) indicated that geographical variation was small but significant. Neutrality tests (Tajima's D and Fu's FS tests) and mismatch distribution showed that haplogroups B, C, and G had expansion histories. In addition, the phylogenetic relationship between domestic and wild goats suggested that Capra aegagrus is the most likely wild ancestor and may have participated in the domestication of ancestral populations of A, B, C, and F haplogroups. A meta-analysis on the mtDNA sequences of goats from international databases was conducted to analyze goats’ genetic diversity, population structure, and matrilineal system evolution worldwide. The results may help further understand the domestication history and gene flow of goats worldwide.

Drosophila obscura is a common fruit fly that inhabits the temperate forests of Europe. While it is abundant in the north compared to other Drosophila, its density decreases southwards, where it is gradually replaced by other Drosophila species. This study describes variation in the mitochondrial Cyt b gene of D. obscura from several European populations. We observed a large number of haplotypes, together with the structuring of genetic variation. Genetic variation is higher in the west where O1 and related divergent haplotypes dominate. In the east, the O2 haplotype is most frequent, together with haplotypes that recently arose from it. In the central part of the species range, both O1 and O2 are equally present, along with many others. These data reveal signs of population expansions that probably happened earlier in the west, and more recently in the east. Though our conclusions are based on only one genetic marker, limiting the power of the analysis, the results imply either postglacial expansion from two unique sources or, more likely, eastwards stepping-stone expansion. This study adds important information on genetic variation and phylogeography to the obscure biology of D. obscura, a species that has the potential to become an interesting model in evolutionary biology and conservation genetics.

Recently, Harpadon nehereus (Bombay duck) has become one of the most important economic fishes in the East China Sea. Understanding the population growth and fishery exploited status of H. nehereus is of great significance for improving its biological knowledge and exploring the driving factors of population expansion in the East China Sea. Based on the fishery survey data and the fishery statistics in the Northern East China Sea, the growth curve of H. nehereus was fitted with the von-Bertalanffy growth equation. The results showed that the asymptotic total length, the growth coefficient, and the theoretical age at zero length were 319 mm, 1.25 year−1, and − 0.11 year, respectively. LBB model, CMSY model, and BSM model were used to evaluate the exploitation status of the H. nehereus population. The results showed that the H. nehereus population was still healthy, and the Schaefer model showed that the resource will recover rapidly after reducing the fishing intensity. These results illustrated that the fast growth rate, short generation time, and strong interspecific competitiveness and environmental adaptability of the H. nehereus population in the East China Sea were the main reasons that lead to the stable fishery status and the increase of the catches. [ABSTRACT FROM AUTHOR]

Drosophila obscura is a common fruit fly that inhabits the temperate forests of Europe. While it is abundant in the north compared to other Drosophila, its density decreases southwards, where it is gradually replaced by other Drosophila species. This study describes variation in the mitochondrial Cyt b gene of D. obscura from several European populations. We observed a large number of haplotypes, together with the structuring of genetic variation. Genetic variation is higher in the west where O1 and related divergent haplotypes dominate. In the east, the O2 haplotype is most frequent, together with haplotypes that recently arose from it. In the central part of the species range, both O1 and O2 are equally present, along with many others. These data reveal signs of population expansions that probably happened earlier in the west, and more recently in the east. Though our conclusions are based on only one genetic marker, limiting the power of the analysis, the results imply either postglacial expansion from two unique sources or, more likely, eastwards stepping-stone expansion. This study adds important information on genetic variation and phylogeography to the obscure biology of D. obscura, a species that has the potential to become an interesting model in evolutionary biology and conservation genetics. [ABSTRACT FROM AUTHOR]

Background: Marine species constitute commercially important resources, and knowledge about mechanisms that shape phylogeographic patterns and genetic structure provides valuable information for conservation. The dolphinfish, Coryphaena hippurus, is one of the most important species caught in the Tropical Eastern Pacific (TEP). However, the lack of consensus about the existence of genetically differentiated populations in the area has hindered the adoption of management strategies to ensure its viability. Methods: We assessed genetic variation and phylogeographic structure using two mitochondrial genes and 14 nuclear DNA microsatellite loci. Population genetic tools were used to characterize the spatial distribution of genetic variation of C. hippurus in the TEP, evaluate the extent of connectivity between dolphinfish populations, infer potential barriers to gene flow, and test for signals of contemporary and historical demographic expansions. Results: Mitochondrial DNA sequences showed genetic homogeneity across locations in the TEP, as well as a strong signal of population expansion dated to the late Pleistocene. In contrast, nuclear microsatellite markers resolved four genetically distinct groups with a remarked genetic differentiation between the most distant locations, at the northern and southern boundaries of the species' range. High mean genetic diversity was found at all localities (Hs = 0.66-0.81). Notwithstanding, positive FIS and low effective population size (Ne = 77.9-496.4) were also recorded. Conclusions: The distribution of genetic variation could be related to expansion-contraction cycles following seasonal temperature changes at transitional areas, promoting population subdivisions. However, we cannot rule out the effect of oceanographic dynamics to the observed patterns. Although this marine species remains highly abundant despite commercial exploitation, the low Ne values are of conservation concern and must be considered in fishery management plans. [ABSTRACT FROM AUTHOR]

Background Marine species constitute commercially important resources, and knowledge about mechanisms that shape phylogeographic patterns and genetic structure provides valuable information for conservation. The dolphinfish, Coryphaena hippurus, is one of the most important species caught in the Tropical Eastern Pacific (TEP). However, the lack of consensus about the existence of genetically differentiated populations in the area has hindered the adoption of management strategies to ensure its viability. Methods We assessed genetic variation and phylogeographic structure using two mitochondrial genes and 14 nuclear DNA microsatellite loci. Population genetic tools were used to characterize the spatial distribution of genetic variation of C. hippurus in the TEP, evaluate the extent of connectivity between dolphinfish populations, infer potential barriers to gene flow, and test for signals of contemporary and historical demographic expansions. Results Mitochondrial DNA sequences showed genetic homogeneity across locations in the TEP, as well as a strong signal of population expansion dated to the late Pleistocene. In contrast, nuclear microsatellite markers resolved four genetically distinct groups with a remarked genetic differentiation between the most distant locations, at the northern and southern boundaries of the species’ range. High mean genetic diversity was found at all localities (Hs = 0.66–0.81). Notwithstanding, positive FIS and low effective population size (Ne = 77.9–496.4) were also recorded. Conclusions The distribution of genetic variation could be related to expansion-contraction cycles following seasonal temperature changes at transitional areas, promoting population subdivisions. However, we cannot rule out the effect of oceanographic dynamics to the observed patterns. Although this marine species remains highly abundant despite commercial exploitation, the low Ne values are of conservation concern and must be considered in fishery management plans.

Biological invasions are a major cause of environmental and economic disruption. While ecological factors are key determinants of their success, the role of genetics has been more challenging to demonstrate. The colonization of Australia by the European rabbit is one of the most iconic and devastating biological invasions in recorded history. Here, we show that despite numerous introductions over a 70-y period, this invasion was triggered by a single release of a few animals that spread thousands of kilometers across the continent. We found genetic support for historical accounts that these were English rabbits imported in 1859 by a settler named Thomas Austin and traced the origin of the invasive population back to his birthplace in England. We also find evidence of additional introductions that established local populations but have not spread geographically. Combining genomic and historical data we show that, contrary to the earlier introductions, which consisted mostly of domestic animals, the invasive rabbits had wild ancestry. In New Zealand and Tasmania, rabbits also became a pest several decades after being introduced. We argue that the common denominator of these invasions was the arrival of a new genotype that was better adapted to the natural environment. These findings demonstrate how the genetic composition of invasive individuals can determine the success of an introduction and provide a mechanism by which multiple introductions can be required for a biological invasion. [ABSTRACT FROM AUTHOR]

Characterizing the genetic diversity and structure of populations is essential for understanding their evolutionary history and planning species conservation. The lesser spotted eagle (Clanga pomarina) is a large migratory raptor with a relatively small breeding range concentrated in Eastern Europe. We evaluated the level of genetic diversity and population structuring by estimating the length diversity of 23 microsatellite markers in 306 individuals and sequencing 473 nucleotides from the mitochondrial pseudo-control region in 265 individuals across the distribution range. The microsatellite data suggested shallow differentiation between geographical regions and moderate genetic diversity across the range; no recent population bottlenecks were detected. Mitochondrial diversity was relatively low; however, high values were recorded at the southern edge of the distribution range. This, in combination with the star-like distribution of mitochondrial haplotypes, suggests the expansion of the European population from a single (Balkan) refugium during the late Pleistocene or early Holocene after the glacial population bottleneck. However, the Caucasian population may have survived in a separate refugium. We conclude that the lack of clear population structuring and ongoing gene flow across Europe support the treatment of the geographically restricted global population of the lesser spotted eagle as a single evolutionary and conservation unit. [ABSTRACT FROM AUTHOR]

Simple Summary: Biting midges are important blood sucking insects. Many species are pests of humans and other animals, including economically important livestock. A new biting midge species, Culicoides mahasarakhamense, was recently described in Thailand. This species is a pest and a potential vector of blood protozoa transmitted to domestic chickens and other avian species. Knowledge of genetic diversity and genetic differentiation among populations of vector species is of paramount importance as it can be used to design effective control programs. However, this information is lacking for C. mahasarakhamense. In this study, we used mitochondrial cytochrome c oxidase I (COI) sequences as genetic markers to evaluate the level of genetic diversity and the genetic structure of C. mahasarakhamense from Thailand. The level of genetic diversity was relatively high, but most populations were not genetically different. However, one population from northern Thailand was found to be genetically highly different from others. Historical population isolation and geographic distance separation are possible explanations for the high level of genetic differentiation. This information will help in monitoring the spread of the parasitic disease agents carried by C. mahasarakhamense from different populations. Biting midges of the genus Culicoides Latreille are significant pests and vectors of disease agents transmitted to humans and other animals. Understanding the genetic structure and diversity of these insects is crucial for effective control programs. This study examined the genetic diversity, genetic structure, and demographic history of Culicoides mahasarakhamense, a possible vector of avian haemosporidian parasites and Leishmania martiniquensis, in Thailand. The star-like shape of the median joining haplotype network, a unimodal mismatch distribution, and significant negative values for Tajima's D and Fu's FS tests indicated that populations had undergone recent expansion. Population expansion time was estimated to be 2000–22,000 years ago. Population expansion may have been triggered by climatic amelioration from cold/dry to warm/humid conditions at the end of the last glaciations, resulting in the increased availability of host blood sources. Population pairwise FST revealed that most (87%) comparisons were not genetically different, most likely due to a shared recent history. The exception to the generally low level of genetic structuring is a population from the northern region that is genetically highly different from others. Population isolation in the past and the limitation of ongoing gene flows due to large geographic distance separation are possible explanations for genetic differentiation. [ABSTRACT FROM AUTHOR]

Blue swimmer crabs (Portunus pelagicus) primarily inhabit the coastal regions of Southeast Asia. This study aimed to examine their population genetic structure, phylogeography, and historical demography by applying partial sequences to the control region in the mitochondrial DNA. The analysis focused on 6 populations comprising 166 individual samples collected from Taiwan (Kezailiao Kaohsiung (KK) and Penghu (PH)), mainland China (Xiamen (XM) and Hong Kong (HK)), Vietnam (Hanoi (VN)), and Singapore (SGP). The estimated nucleotide diversity (π) for all of the samples was 0.062, with values ranging between 0.018 (PH) and 0.045 (HK). Our study collected 116 haplotypes and classified them into lineages A and B. The XM, HK, VN, and SGP populations made up lineage A, and the PH and KK populations comprised lineage B. For each lineage, the results highlighted indications of demographic expansion. Lineage A can be traced back to the second-to-last interglacial period, while lineage B possibly originated in the last glacial period. There were significant differences in the FST values among the six populations, except for the pairs HK–XM and PH–KK. In conclusion, the phylogeography and genetic structure of P. pelagicus in Southeast Asia were potentially affected by the Pleistocene glacial cycles and human introduction. These findings further highlight the possible dispersal routes of P. pelagicus throughout Southeast Asia. [ABSTRACT FROM AUTHOR]

Ticks are the second most important vector capable of transmitting diseases affecting the health of both humans and animals. Amblyomma testudinarium Koch 1844 (Acari: Ixodidae), is a hard tick species having a wide geographic distribution in Asia. In this study, we analyzed the composition of A. testudinarium whole mitogenomes from various geographical regions in Japan and investigated the population structure, demographic patterns, and phylogeographic relationship with other ixodid species. In addition, we characterized a potentially novel tick species closely related to A. testudinarium from Myanmar. Phylogeographic inference and evolutionary dynamics based on the 15 mitochondrial coding genes supported that A. testudinarium population in Japan is resolved into a star‐like haplogroup and suggested a distinct population structure of A. testudinarium from Amami island in Kyushu region. Correlation analysis using Mantel test statistics showed that no significant correlation was observed between the genetic and geographic distances calculated between the A. testudinarium population from different localities in Japan. Finally, demographic analyses, including mismatch analysis and Tajima's D test, suggested a possibility of recent population expansion occurred within Japanese haplogroup after a bottleneck event. Although A. testudinarium has been considered widespread and common in East and Southeast Asia, the current study suggested that potentially several cryptic Amblyomma spp. closely related to A. testudinarium are present in Asia. [ABSTRACT FROM AUTHOR]

The giant anteater (Myrmecophaga tridactyla) is a strictly myrmecophagous xenarthran species that ranges from Honduras to northern Argentina, occupying various habitats, from grassland and floodplains to forests. According to the IUCN, it is a vulnerable species mainly threatened by poaching, habitat loss and fragmentation, and road kills. Here, we investigate the phylogeography, distribution, ecology, and historical demography of Brazilian populations of the giant anteater. We analysed two mitochondrial (mtDNA) and three nuclear (nDNA) markers in 106 individuals from the Cerrado, Pantanal, Atlantic Forest, and Amazon Forest biomes through analyses of population structure and demography, phylogeography, and ecological niche modelling. Two divergent mtDNA clusters were found, one in the Amazon (AM) and another in the Cerrado, Pantanal, and Atlantic Forest biomes (CEPTAF). At the population level, CEPTAF presented higher mtDNA haplotype richness than AM and a unidirectional mtDNA gene flow was identified from AM to CEPTAF, which could be linked to more favourable habitat conditions for the species in Cerrado and Pantanal. Paleodemographic reconstructions with mtDNA and nDNA data indicate a large population expansion of the species starting at the end of the Pleistocene. Finally, the integrative phylogeographic analyses of giant anteater populations reinforce the importance of the Brazilian Cerrado as a priority biome for the species' conservation. [ABSTRACT FROM AUTHOR]

Pedicularis kansuensis is an indicator species of grassland degradation. Its population expansion dramatically impacts the production and service function of the grassland ecosystem, but the effects and mechanisms of the expansion are still unclear. In order to understand the ecological effects of P. kansuensis, three P. kansuensis patches of different densities were selected in an alpine grassland, and species diversity indexes, biomasses, soil physicochemical properties, and the mechanism among them were analyzed. The results showed that P. kansuensis expansion increased the richness index, the Shannon–Wiener index significantly, and the aboveground biomass ratio (ABR) of the Weed group (p < 0.05), but reduced the total biomass of the community and the ABR of the Gramineae and Cyperaceae decreased insignificantly (p > 0.05); soil moisture, soil AOC, and NO3−·N decreased significantly (p < 0.05), while soil pH and total soil nutrients did not change significantly, and available phosphorus (AP) decreased at first and then increased (p < 0.05). The structural equation model (SEM) showed that P. kansuensis expansion had a significant positive effect on the community richness index, and a significant negative effect followed on the soil AOC from the increase of the index; the increase of pH had a significant negative effect on the soil AOC, NO3−·N, and AP. It indicated that P. kansuensis expansion resulted in the increase of species richness, the ABR of the Weed group, and the community's water demand, which promoted the over-utilization of soil available nutrients in turn, and finally caused the decline of soil quality. This study elucidated a possible mechanism of poisonous weeds expansion, and provided a scientific and theoretical basis for grassland management. [ABSTRACT FROM AUTHOR]

It is increasingly common for apex predators to face a multitude of complex conservation issues. In Australia, dingoes are the mainland apex predator and play an important role in ecological functioning. Currently, however, they are threatened by hybridization with modern domestic dogs in the wild. As a consequence, we explore how increasing our understanding of the evolutionary history of dingoes can inform management and conservation decisions. Previous research on whole mitochondrial genome and nuclear data from five geographical populations showed evidence of two distinct lineages of dingo. Here, we present data from a broader survey of dingoes around Australia using both mitochondrial and Y chromosome markers and investigate the timing of demographic expansions. Biogeographic data corroborate the presence of at least two geographically subdivided genetic populations, southeastern and northwestern. Demographic modeling suggests that dingoes have undergone population expansion in the last 5,000 years. It is not clear whether this stems from expansion into vacant niches after the extinction of thylacines on the mainland or indicates the arrival date of dingoes. Male dispersal is much more common than female, evidenced by more diffuse Y haplogroup distributions. There is also evidence of likely historical male biased introgression from domestic dogs into dingoes, predominately within southeastern Australia. These findings have critical practical implications for the management and conservation of dingoes in Australia; particularly a focus must be placed upon the threatened southeastern dingo population.

Abstract Background The Orange-fronted Parakeet (Eupsittula canicularis) is the Mexican psittacine that is most captured for the illegal pet trade. However, as for most wildlife exploited by illegal trade, the genetic diversity that is extracted from species and areas of intensive poaching is unknown. In this study, we analyzed the genetic diversity of 80 E. canicularis parakeets confiscated from the illegal trade and estimated the level of extraction of genetic diversity by poaching using the mitochondrial DNA sequences of cytochrome b (Cytb). In addition, we analyzed the genealogical and haplotypic relationships of the poached parakeets and sampled wild populations in Mexico, as a strategy for identifying the places of origin of poached parakeets. Results Poached parakeets showed high haplotype diversity (Hd = 0.842) and low nucleotide diversity (Pi = 0.00182). Among 22 haplotypes identified, 18 were found exclusively in 37 individuals, while four were detected in the remaining 43 individuals and shared with the wild populations. A rarefaction and extrapolation curve revealed that 240 poached individuals can include up to 47 haplotypes and suggested that the actual haplotype richness of poached parakeets is higher than our analyses indicate. The geographic locations of the four haplotypes shared between poached and wild parakeets ranged from Michoacan to Sinaloa, Mexico. However, the rare haplotypes detected in poached parakeets were derived from a recent genetic expansion of the species that has occurred between the northwest of Michoacan and the coastal region of Colima, Jalisco and southern Nayarit, Mexico. Conclusions Poached parakeets showed high genetic diversity, suggesting high extraction of the genetic pool of the species in central Mexico. Rarefaction and extrapolation analyses suggest that the actual haplotype richness in poached parakeets is higher than reflected by our analyses. The poached parakeets belong mainly to a very diverse genetic group of the species, and their most likely origin is between northern Michoacan and southern Nayarit, Mexico. We found no evidence that poachers included individuals from Central American international trafficking with individuals from Mexico in the sample.

Objective Old World camels are a valuable genetic resource for many countries around the world due to their adaptation to the desert environment. At present, Old World camels have encountered the challenge of unprecedented loss of genetic resources. Through our research, we would reveal the population structure and genetic variation in Old World camel populations, which provides a theoretical basis for understanding the germplasm resources and origin and evolution of different Old World camel populations. Methods In the present study, we assessed mtDNA control region sequences of 182 individuals from Old World camels to unravel genetic diversity, phylogeography, and demographic dynamics. Results Thirty-two haplotypes confirmed by 54 polymorphic sites were identified in the 156 sequences, which included 129 domestic and 27 wild Bactrian camels. Meanwhile, 14 haplotypes were defined by 47 polymorphic sites from 26 sequences in the dromedaries. The wild Bactrian camel population showed the lowest haplotype and nucleotide diversity, while the dromedaries investigated had the highest. The phylogenetic analysis suggests that there are several shared haplotypes in different Bactrian camel populations, and that there has been genetic introgression between domestic Bactrian camels and dromedaries. In addition, positive values of Tajima’s D and Fu’s Fs test demonstrated a decrease in population size and/or balancing selection in the wild Bactrian camel population. In contrast, the negative values of Tajima’s D and Fu’s Fs test in East Asian Bactrian camel populations explained the demographic expansion and/or positive selection. Conclusion In summary, we report novel information regarding the genetic diversity, population structure and demographic dynamics of Old World camels. The findings obtained from the present study reveal that abundant genetic diversity occurs in domestic Bactrian camel populations and dromedaries, while there are low levels of haplotype and nucleotide diversity in the wild Bactrian camel population.