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Amphiboreal taxa are often composed of vicariant phylogroups and species complexes whose divergence and phylogeographic affinities reflect a shared history of chronic isolation and episodic trans-Arctic dispersal. Ecological filters and shifting selective pressures may also promote selective sweeps, niche shifts and ecological speciation during colonization, but these are seldom considered at biogeographical scales. Here we integrate genetic data and Ecologic Niche Models (ENMs) to investigate the historical biogeography and cohesion of the polymorphic rockweed Fucus distichus throughout its immense amphiboreal range, focusing on trans-Arctic asymmetries, glacial/interglacial dynamics, and integrity of sympatric eco-morphotypes. Populations were sampled throughout the Pacific and the Atlantic, from southern rear-edges to the high-Arctic. They were genotyped for seven microsatellites and an mtDNA spacer, and genetic diversity and structure were assessed from global to local scales. ENMs were used to compare niche divergence and magnitude of post-glacial range shifts in Pacific versus Atlantic sub-ranges. Haplotypic and genotypic data revealed distinct and seemingly isolated Pacific vs Arctic/Atlantic gene-pools, with finer-scale regional sub-structuring pervasive in the Pacific. MtDNA diversity was highly structured and overwhelmingly concentrated in the Pacific. Regionally, Alaska showed the highest intra-population diversity but the lowest levels of endemism. Some sympatric/parapatric ecotypes exhibited distinct genotypic/haplotypic compositions. Strikingly, niche models revealed higher Pacific tolerance to maximum temperatures and predicted a much more consolidated presence in the NE Atlantic. Glacial and modern ranges overlapped extensively in the Pacific, whereas the modern Atlantic range was largely glaciated or emerged during the Last Glacial Maximum. Higher genetic and ecogeographic diversity supports a primary Pacific diversification and secondary Atlantic colonization, also likely reflecting the much larger and more stable climatic refugia in the Pacific. The relic distribution and reduced ecological/morphological plasticity in the NE Atlantic are hypothesized to reflect functional trans-Arctic bottlenecks, recent colonization or competition with congeners. Within the Pacific, Alaska showed signatures of a post-glacial melting pot of eastern and southern populations. Genetic/ecotypic variation was generally not sufficiently discontinuous or consistent to justify recognizing multiple taxonomic entities, but support a separate species in the eastern Pacific, at the southern rear-edge. We predict that layered patterns of phylogeographic structure, incipient speciation and niche differences might be common among widespread low-dispersal amphiboreal taxa.

GrayiaGünther 1858 is a genus of relatively large (1.2–2.5 m) aquatic Afrotropical snakes. Recent molecular phylogenies recovered Grayia in its own distinct subfamily (Grayiinae), which was supported as the sister group to Colubrinae. Tropical African snakes are generally understudied, so the relationships within Grayia are poorly known. High degrees of intra- and interspecies variation can make identification difficult, and previous studies involving Grayia included misidentified specimens in other genera. The goal of this study is to create a phylogenetic tree that can be used to understand the relationships and taxonomy of Grayia via an integrative taxonomic approach that combines molecular data for 60 specimens and morphological data for 719 specimens. Two nuclear (BDNF, NT3) and four mitochondrial genes (COI, cyt b, 16S, and ND4) were used to construct phylogenetic trees with Maximum Likelihood and Bayesian Inference algorithms. The phylogenetic trees recovered two clades, Grayia caesar + G. tholloni and G. ornata + G. smythii, which the time-calibrated Bayesian Evolutionary Analysis Sampling Tree (BEAST) analysis estimated to have diverged from each other in the mid-Oligocene. This deep divergence, combined with distinct morphological differences, led us to resurrect the name XenurophisGünther 1863 as a subgenus [G. (Xenurophis) caesar, G. (Xenurophis) tholloni]. Molecular and morphological evidence further supports a new cryptic species of Grayia from the Upper and Middle Congo River and its tributaries. This new species is estimated to have diverged from its nearest sister species, G. ornata, in the Late Miocene—which coincides with the divergence dates of sister taxa within other Central African snake genera. Grayia ornata sensu stricto was found to consist of several evolutionary lineages, which mirror the patterns recovered in other Central African vertebrates. [ABSTRACT FROM AUTHOR]

Red crossbills (Loxia curvirostra) are the archetypal example of a taxon with high infraspecific diversity in traits including bill size and especially vocal characteristics. Currently, at least 11 different call types in North America have been recognized. We hypothesize that a variant call within type 10 has been overlooked and is a distinct type. Principal component analysis showed that the inverted "V" of these calls is consistently and demonstrably different from similar calls of birds previously categorized as Type 10 variants. We argue these calls should be treated separately as a distinct type, Type 12. Due to increasingly available recordings of crossbills gathered and archived into public databases by birders, our analyses reveal that this call type is predominantly distributed across northeastern North America. Although crossbill types do not always map to formerly described subspecies, we also argue that Type 12 likely matches the historically described L. c. neogaea , the "old Northeastern subspecies". [ABSTRACT FROM AUTHOR]

Understanding of non-geniculate coralline algal (NGCA) diversity, prevalence, and distribution in the tropical western North Atlantic is currently limited by reliance on morphological and anatomical features that are inadequate for species identifications. Reef surveys from two study sites, the Florida Keys (Florida, USA) and Roatán (Honduras), provided prevalence data for the main benthic organisms as well as relative abundance for NGCA genera. NGCA collected during these surveys and from additional sites and depths were identified using DNA sequences from two plastid genes, psbA and rbcL, and two nuclear genes, SSU and LSU, and supported by morphological and anatomical descriptions. Bayesian and Maximum Likelihood phylogenetic analyses, along with species delimitation and genetic distance methods, resolved 11 genera within two orders. Within the Corallinales, the genera Dawsoniolithon, Porolithon and Spongites each had one species, Harveylithon and Lithophyllum had two, Titanoderma three, Hydrolithon four, Neogoniolithon eight, and an unknown genus within the subfamily Neogoniolithoideae had 11 putative species. Within the Hapalidiales, the genera Phymatolithon and Roseolithon each had one species. This study reinforces the inability of morphological and anatomical features to distinguish NGCA species in the tropical western North Atlantic, resulting in substantial underestimations of species richness and diversity. [ABSTRACT FROM AUTHOR]

The tomato (Solanum lycopersicum) is an important crop to the economy of Brazil, and the whitefly Bemisia tabaci (Gennadius) (Hemiptera: Aleyrodidae) is one of the limiting factors responsible for reducing its yields. These insects are part of a cryptic species group present across almost the entire globe. The most relevant cryptic species in the world are B. tabaci MEAM1 and MED due to their capability to adapt and cause damage to vegetables, grain, and ornamental crops. The arrival of MED in Brazil through the state of São Paulo represents risks to farmers in the region due to the difficulty in managing these insects. This study assessed the occurrence of both species in tomato crops in the southeastern region of Brazil in 2020 and 2021. An amount of 79 samples containing 767 insects were collected throughout the study period, and in the cities of Sumaré (SP) and Monte Mor (SP), several samples were collected from the same location throughout the year. The insects were stored and sent for molecular analysis. The results showed an increase in MED compared to MEAM1. The presence of MED in the Minas Gerais samples was not recorded. However, a higher percentage of MED was observed in the state of São Paulo, which was detected in the municipalities of Sumaré and Monte Mor. These results possibly indicate that MED could be starting to stabilize in open tomato fields in Brazil. [ABSTRACT FROM AUTHOR]

Soybean red leaf blotch (RLB), caused by the fungus Coniothyrium glycines, represents a foliar disease of soybean that is thus far restricted to Africa. The fungus is listed as a Select Agent by the Federal Select Agent Program because it could pose a severe threat to plant health were it to establish in the United States. Previous work uncovered tremendous molecular diversity at the internal transcribed spacer region, suggesting that there may be multiple species causing RLB. To determine whether multiple species cause RLB, we reconstructed the phylogeny of C. glycines and taxonomic allies using sequence data from four genes. We included 33 C. glycines isolates collected from six African countries and determined that all isolates form a well-supported, monophyletic lineage. Within this lineage there are at least six well-supported clades that largely correspond to geography, with one clade exclusively composed of isolates from Ethiopia, another exclusively composed of isolates from Uganda, and four composed of isolates from southern Africa. However, we did not detect any concordance for these clades between the four genes, indicating that all isolates included in this analysis are representative of a single species. Isolates in the Ethiopia clade are morphologically distinct from isolates in the other clades, as they produce larger sclerotia and smaller pycnida and more sclerotia in planta. Additionally, ancestral range estimations suggest that the C. glycines lineage emerged in southern Africa. These results show that there is significantly more genetic and morphological diversity than was initially suspected with this high-consequence fungal plant pathogen. [ABSTRACT FROM AUTHOR]

Scoliodon is a genus of small placental sharks living in offshore waters. For a long time, the genus was considered a monotypic genus until a valid species, Scoliodon macrorhynchos, was confirmed in 2010. However, S. muelleri in the same study was not widely recognized because of the lack of evidence. In this study, we obtained the complete mitochondrial genome of the genus Scoliodon from Ranong, Thailand, and tentatively named it Scoliodon sp. By comparing the complete mitochondrial genome with those of two other Scoliodon species and conducting phylogenetic and divergence time analyses, we determined that Scoliodon sp. diverged from the other species. These findings indicate the potential for a new cryptic species (Scoliodon sp.) in the Scoliodon genus. This conclusion was further supported by a subsequent analysis of the published S. laticaudus control region sequences from previous studies. Finally, based on these conclusions, we used machine learning to derive a new identification method for the cryptic species. This approach may be useful for the discovery of new species or cryptic species in other organisms. [ABSTRACT FROM AUTHOR]

Synthetic pheromones formulated for Acossus centerensis Lintner, 1877 led to the discovery of a new taxonomically cryptic species, Acossus boreocryptus Schmidt & Jaeger sp. nov. Adult males were active only during the daytime, exceptional among cossid moths, and the first documented case of diurnality in New World Cossidae. Males were attracted to lures baited with (E,E) 3,5-tetradecadienyl acetate (EE-TDDA). The larval host plant of A. boreocryptus is trembling aspen, Populus tremuloides Michx., but the immature stages remain undescribed. Acossus boreocryptus is the smallest species in the genus, distinguished from its sister species A. centerensis by adult morphology, mtDNA barcode, male diurnal activity, and seasonal phenology. [ABSTRACT FROM AUTHOR]

Aegla is a genus of freshwater anomuran crabs encompassing 94 described species occurring in meridional South America. Brazil harbours the greatest diversity of species, mainly in its southern region, which becomes a priority area for Aegla conservation due to high species richness and phylogenetic diversity, elevated endemism and threats to the Atlantic Forest. Here, we assessed Aegla richness and distribution in this priority area and tested the hypothesis of crypticism in the region's species. Sampling sites were distributed inside and in the surroundings of five protected areas, covering the major distribution range of several species described for southern Brazil. We applied three species delimitation methods to COI mitochondrial gene data, coupled with phylogenetic and morphological analyses. By integrating species delimitation based on the COI data and traditional taxonomy, we uncovered a high proportion of hidden diversity among Aegla in our study area and identified ten known species besides impressive 17 new putative species. Of these, eight are possible new taxonomic units that do not conform to any known species, and nine are divided into three cryptic groups: Aegla jarai complex, Aegla franciscana complex and Aegla camargoi complex. Most of these species have a narrow spatial distribution, making them highly vulnerable to habitat degradation. Despite the real richness of the genus still being largely unknown, the high diversity revealed here makes our study area the richest known region regarding the number of Aegla species within its distribution, making this area even more worthy for conservation efforts. [ABSTRACT FROM AUTHOR]

Integrating different lines of evidence is currently recognized as the most robust approach to investigating taxonomic questions, particularly those concerning cryptic diversity. In recent years, different sources of evidence have pointed to new cryptic taxa for bats, with the genus Hsunycteris being an excellent study group because of its large karyotypic variability and high genetic divergence revealed by the latest taxonomic and systematic reviews. This study tests the cryptic diversity hypothesis for the Hsunycteris thomasi complex through an integrative approach using species delimitation, phylogenetic analysis, chromosome painting, and linear morphometry. Our results suggest the existence of three lineages for H. thomasi that are morphologically indistinguishable, confirming the two previously described lineages in the literature and adding a third. We argue that the paraphyly in H. thomasi, as reported by previous studies, should be treated as independent species since they have unique evolutionary histories. Finally, we demonstrate that chromosomal and molecular methods are indispensable for recognizing and confirming groups that include cryptic species or species with confusing and controversial taxonomy. [ABSTRACT FROM AUTHOR]

Simple Summary: The Hemiphyllodactylus is a small gecko. Recently, many species belonging to the genus Hemiphyllodactylus have been discovered in the karst region. Therefore, we conducted a large scale of surveys and specimen collections in multiple karst areas of Yunnan Province. Three populations of Hemiphyllodactylus were found to be morphologically and molecularly distinct from known species, prompting us to describe them as three new species. Our study further illustrates the high diversity of Hemiphyllodactylus species within Yunnan Province. The karst landform in Yunnan Province, China, represents one of the most biodiverse regions for Hemiphyllodactylus. Previous research has revealed that the karst forests in this province host a greater diversity of Hemiphyllodactylus than previously acknowledged. However, substantial fundamental data essential for taxonomic and biogeographical studies are lacking. We conducted extensive surveys for Hemiphyllodactylus in the Yunnan Province that led to the discovery of three new species from Menglian Dai, Lahu, and Wa Autonomous County and Jinghong City based on morphological and genetic data. A phylogenetic reconstruction based on the ND2 gene (1038 bp) placed the three new species into clade 3 and clade 4 of Agung et al. The uncorrected genetic pairwise distance of the Menglian specimens were greater than 5.7%, and those of the Jinghong City specimens were greater than 5.2% and 8.5%, respectively. They could be distinguished from their congeners by body size, chin scales, internasal scales, ventral scales, dorsal scales, and the total number of femoral and precloacal pores. Furthermore, we update the distributional knowledge of the known species. [ABSTRACT FROM AUTHOR]

New Guinea is the largest tropical island in the world and hosts immense endemic biodiversity. However, our understanding of how the gradual emergence of the terrestrial ecosystems of the island over the last 40 Myr has generated this biological richness is hampered by poorly documented species diversity and distributions. Here, we address both these issues through an integrative taxonomy and biogeographical approach using Hylophorbus , a New Guinea-endemic genus of frogs with 12 recognized species. We delimited candidate species by integrating mitochondrial DNA, nuclear DNA, and bioacoustics, then investigated their evolutionary history. Our results suggest that the current taxonomy of the genus misses true species diversity by ≥3.5-fold. Nevertheless, most candidate species (27) remain unconfirmed because of missing data, whereas five were identified unambiguously as undescribed (we describe three of these formally). Time-calibrated phylogenetic analyses suggest that Hylophorbus diversification began ~9 Mya in the northern or eastern portion of New Guinea. It would appear that lineages dispersed to new terrestrial habitats in the west, notably uplifted by the central range orogeny, until eventually reaching the Bird's Head during the Mio-Pliocene (7–5 Mya). Conversely, a past barrier appears to have prevented north–south dispersal. These data suggest that new habitat availability has primarily driven the diversification of Hylophorbus. [ABSTRACT FROM AUTHOR]

The Ili River Valley, located in the northwest of China, serves as a vital repository for fish genetic resources. Its extensive water network and diverse climate have given rise to a unique fish composition and endemic species. In this study, we collected the cytochrome c oxidase subunit I (COI) sequences from 660 fish specimens in the Ili River Valley. The effectiveness of DNA barcoding in identifying fish species in the area was assessed by examining genetic distances, constructing phylogenetic trees, and performing ABGD (Automatic Barcode Gap Discovery) analyses, among other methods. In total, 20 species were identified, including one unidentified species (Silurus sp.). Except for Silurus asotus and Hypophthalmichthys molitrix (only one sample), the maximum intraspecific genetic distance among the remaining species was smaller than the minimum interspecific distance, which proves that the species exhibit obvious barcode gaps. In the Neighbor‐Joining trees, 20 species formed separate monophyletic branches. According to ABGD analysis, 660 sequences were categorized into 19 Operational Taxonomic Units, with Silurus sp. and S. asotus grouped into a single OTU. The Silurus in this study exhibits shared haplotypes and significant genetic divergence, suggesting the potential presence of cryptic species. Furthermore, the nucleotide diversity across all species fell below the threshold level, indicating that the local fish population is gradually declining. In conclusion, this study has demonstrated the effectiveness of DNA barcoding in identifying fish species in the Ili River Valley, providing valuable data to support the conservation of local fish resources. [ABSTRACT FROM AUTHOR]

Simple Summary: Heptageniidae is the third most species-rich family within Ephemeroptera (mayflies). Although multiple studies have been conducted, the monophyly, phylogenetic relationships, and the divergence time of its subfamilies have always been controversial. The current study sequenced 17 new mitogenomes to reconstruct the phylogenetic relationships and calculate the divergence time within Heptageniidae. Therefore, based on comparing the composition of three mitogenomes bias, phylogenetic relationships, and divergence time of Epeorus montanus Brodsky, 1930, we suggest that cryptic species exist in E. montanus. Heptageniidae are known for their flat heads and bodies and are divided into three subfamilies. Despite the extensive diversity within this group and considerable efforts made to understand their evolutionary history, the internal classifications and origin time of Heptageniidae remains controversial. In this study, we newly sequenced 17 complete mitogenomes of Heptageniidae to reconstruct their phylogenetic positions within this family. Because of the ambiguous time of origin, our study also estimated the divergence time within Heptageniidae based on five fossil calibration points. The results of BI and ML trees all highly supported the monophyly of Heptageniidae and three subfamilies. The phylogenetic relationship of Rhithrogeninae + (Ecdyonurinae + Heptageniinae) was also recovered. The divergence time showed that Heptageniidae originated from 164.38 Mya (95% HPD, 150.23–181.53 Mya) in the mid-Jurassic, and Rhithrogeninae originated from 95.54 Mya (95% HPD, 73.86–120.19 Mya) in the mid-Cretaceous. Ecdyonurinae and Heptageniinae began to diverge at 90.08 Mya (95% HPD, 68.81–113.16 Mya) in the middle Cretaceous. After morphological identification, analysis of the mitogenome's composition, genetic distance calculation, phylogenetic analysis, and divergence time calculation, we suggest that two different populations of Epeorus montanus collected from Aksu, Xinjiang Uygur Autonomous Region (40°16′ N, 80°26′ E) and Xinyuan, Xinjiang Uygur Autonomous Region (43°20′ N, 83°43′ E) in China are cryptic species of E. montanus, but further detailed information on their morphological characteristics is needed to fully identify them. [ABSTRACT FROM AUTHOR]

Genomic‐scale datasets, sophisticated analytical techniques, and conceptual advances have disproportionately failed to resolve species boundaries in some groups relative to others. To understand the processes that underlie taxonomic intractability, we dissect the speciation history of an Australian lizard clade that arguably represents a "worst‐case" scenario for species delimitation within vertebrates: the Ctenotus inornatus species group, a clade beset with decoupled genetic and phenotypic breaks, uncertain geographic ranges, and parallelism in purportedly diagnostic morphological characters. We sampled hundreds of localities to generate a genomic perspective on population divergence, structure, and admixture. Our results revealed rampant paraphyly of nominate taxa in the group, with lineages that are either morphologically cryptic or polytypic. Isolation‐by‐distance patterns reflect spatially continuous differentiation among certain pairs of putative species, yet genetic and geographic distances are decoupled in other pairs. Comparisons of mitochondrial and nuclear gene trees, tests of nuclear introgression, and historical demographic modelling identified gene flow between divergent candidate species. Levels of admixture are decoupled from phylogenetic relatedness; gene flow is often higher between sympatric species than between parapatric populations of the same species. Such idiosyncratic patterns of introgression contribute to species boundaries that are fuzzy while also varying in fuzziness. Our results suggest that "taxonomic disaster zones" like the C. inornatus species group result from spatial variation in the porosity of species boundaries and the resulting patterns of genetic and phenotypic variation. This study raises questions about the origin and persistence of hybridizing species and highlights the unique insights provided by taxa that have long eluded straightforward taxonomic categorization. [ABSTRACT FROM AUTHOR]

DNA barcoding is a popular approach that can aid in identifying species and has led to the discovery of many new amphibian species. In this study, we first performed DNA barcoding for two Hylidae family representatives (Hyla orientalis and Hyla savignyi) in the Anatolia region of Türkiye. Five species delineation tests (ABGD, GMYC, PTP, RESL, and statistical parsimony analysis) were applied, and four of them indicated that three mitochondrial lineages of Hylidae are present in Anatolia. Intraspecific genetic distances (K2P) ranged from 0.0014 to 0.0045, while the interspecific genetic distances ranged from 0.0753 to 0.1933. According to the tree topologies obtained from maximum likelihood (ML) within H. savignyi from Anatolia, two lineages can be differentiated, and further investigation is warranted as to whether these lineages represent distinct species. [ABSTRACT FROM AUTHOR]

The genus Niphargus is the most diverse subterranean amphipod genus in the western Palearctic region but, owing to the presence of cryptic species and homoplasy, its taxonomy and biogeographic scenarios are complex, making molecular methods essential to understand its evolution. We conducted a study combining DNA-based taxonomy with traditional morphotaxonomy to investigate Niphargus bihorensis Schellenberg, 1940, known from the Western Alps and Carpathians. We redescribed the type material of N. bihorensis from Bihor County, Romania, and revealed the presence of a cryptic species, N. absconditus n. sp., in the same karstic area (Pădurea Craiului Mountains). Additionally, the Alpine populations previously attributed to N. bihorensis turned out to belong to a new, not so closely related species, N. tizianoi n. sp. Phylogenetic analyses based on a concatenated dataset of one mitochondrial and two nuclear markers suggest that the N. bihorensis species complex belongs to a strongly supported clade, together with several species distributed from Switzerland to Iran. [ABSTRACT FROM AUTHOR]

Knowledge of the population genetic structure and diversity of at-risk species is essential to accurately evaluate population viability and define units for conservation and management. The southeastern pocket gopher (Geomys pinetis) is a fossorial rodent native to the imperiled longleaf pine savannas of the southeastern United States. Its recent decline has made it a species of 'high conservation concern' by state agencies. Previous phylogenetic analyses suggested two distinct lineages within the species occurring east (G. p. pinetis) and west (G. p. mobilensis) of the Apalachicola-Chattahoochee-Flint River (ACF) Basin, a phylogeographic break for many species. However, little is known about the genetic substructure within each region. We examined neutral and putatively adaptive variation in 9373 single nucleotide polymorphisms (SNPs) to assess the extent of genetic structure across the species' geographic range. We confirmed significant genetic divergence of populations east–west of the ACF Basin, predating the Last Glacial Maximum, supporting the presence of two evolutionary independent lineages. Our results indicate additional strong genetic substructuring within each lineage and possible non-neutral variation across latitudes. Given the high degree of genetic differentiation and lack of evidence for secondary contact among populations within the ACF Basin, we recommend that G. pinetis be managed as two conservation units corresponding to distinct lineages representing G. pinetis and G. mobiliensis. [ABSTRACT FROM AUTHOR]

The nightjars of the Caprimulgus macrurus complex are distributed from Pakistan to Australia and comprise six morphologically similar but vocally distinct species. Fieldwork on Timor and Wetar, Lesser Sunda Islands, has resulted in the discovery of a seventh species in the complex, which we describe as a new species. This species has previously been confused with Caprimulgus macrurus, Caprimulgus celebensis and Caprimulgus manillensis but it differs from these and all other species in the complex by at least 13 vocal characters. Discriminant function analysis correctly classified all recordings in the complex to species. Caprimulgus ritae is known from five adult museum specimens, which are the smallest in the complex and which differ from other species in the complex in several morphological characters. A molecular phylogenetic analysis indicated that C. ritae is sister to C. meesi from Flores and Sumba, and that these species together are sister to C. macrurus. C. ritae is a tropical forest specialist occurring from sea level to at least 1500 m (probably mostly below 1000 m). Lowland and montane forests on Timor are threatened. Wetar is one of the least developed islands in Indonesia, and retains >95% natural vegetation, dominated by Eucalyptus woodlands, with tropical forests in river gorges and slopes in upland areas. Pressure for development is accelerating throughout the range of C. ritae, and a detailed assessment of its conservation status is urgently needed. [ABSTRACT FROM AUTHOR]

The clown wedgefish Rhynchobatus cooki (Last, Kyne & Compagno, 2016) is a recently described and threatened species whose geographic range is solely known from six records reported in 2020. An emerging and cost-effective methodology to locate range records of cryptic and data-poor animal taxa is iEcology, wherein social media posts and other online content are searched to locate sightings of target species. The authors employed regular iEcology searches over a period of 18 months to locate additional range records, with such effort yielding 11 new records for the clown wedgefish, with four landings in Dabo, Singkep Island, five landings in Merbau, Merbau Island, and two landings in Bengkalis, Bengkalis Island. Seven of these new records extend the identified geographic range for the species to islands of the Meranti and Bengkalis Regencies in the Riau Province of Sumatra, Indonesia. Such results affirm the utility of social media and other online searches to locate range records for cryptic and data-poor taxa. [ABSTRACT FROM AUTHOR]

Abstract The colubrid snakes of the genera Gongylosoma Fitzinger, 1843 and Liopeltis Fitzinger, 1843 are distributed across south and southeast Asia with five and eight nominate species, respectively. Despite their wide distribution, members of these genera are among some of the least-known colubrids. The two genera were considered synonymous in the past only to be separated later, and are defined on rather nebulose characters with a lack of support from molecular data. To test the monophyly of the two genera, we generated molecular data for the type species of Gongylosoma and species representing the two genera, including samples of Liopeltis rappii (Günther, 1860) from the western Himalayas. Results recovered paraphyly of Liopeltis, especially with regard to the genus Gongylosoma. Morphological data supports recognizing the western and eastern populations of L. rappii as two distinct species. The findings from our integrative taxonomic approach advocate establishing a new genus to embody Liopeltis rappii and a new allied species from the central and western Himalayas. A rediagnosis and revised classification of the genera Gongylosoma and Liopeltis is presented. The results further hint at cryptic diversity across members of the two genera, warranting scrutiny of the most widespread members of the group.

Downy mildews are cosmopolitan obligate biotrophic parasites of flowering plants. They are fungus-like eukaryotes of the kingdom Straminipila, and most species are highly specialised, often parasitising only a single host species. Due to the prevalence of a broad species concept before the advent of molecular phylogenetics and the paucity of differentiating characteristics in some groups, many widespread species are still undescribed. This is also the case for some downy mildews in the clade containing the type species of Peronospora, Peronospora rumicis. Spurred by the discovery of the undescribed species parasitising Rumex acetosa at the Blávík research station in East Iceland, three new widespread species of Peronospora are introduced in this article: Peronospora blauvikensis parasitic to Rumex acetosa, P. boylei parasitic to Rumex thyrsiflorus, and P. spergulariae parasitic to Spergula marina. As the species are morphologically highly similar, a set of diagnostic bases is given for each species, allowing a quick identification via molecular barcoding. [ABSTRACT FROM AUTHOR]

Cotton leaf curl Multan virus (CLCuMuV), a serious viral disease causative agent in cotton plants in South Asia, is transmitted by the Bemisia tabaci cryptic species complex in a persistent circulative manner. A previous study indicated that Asia II-7 whiteflies could transmit CLCuMuV, while Mediterranean (MED) whiteflies failed to transmit CLCuMuV. However, little is known about the genes involved in this process. In this study, Asia II-7 and MED B. tabaci were utilized to determine transcriptomic responses after 48 h of acquisition access periods (AAPs). Result of Illumina sequencing revealed that, 14,213 and 8,986 differentially expressed genes (DEGs) were identified. Furthermore, DEGs related to the immune system and metabolism of Asia II-7 and MED in response to CLCuMuV-infected plants were identified and analyzed using Gene Ontologies (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG), and the number of related DEGs in MED was lower than that of Asia II-7. The most abundant groups of DEGs between both viruliferous and aviruliferous whitefly species were the zf-C2H2 family of transcription factors (TFs). Notably, in comparison to viruliferous MED, Asia II-7 exhibited more DEGs related to cathepsin biosynthesis. Overall, this study provides the basic information for investigating the molecular mechanism of how begomoviruses affect B. tabaci metabolism and immune response either as vector cryptic species or non-vector species. [ABSTRACT FROM AUTHOR]

The genus Dicellophilus Cook, 1896, is a peculiar genus from the point of view of distribution. Dicellophilus is distributed in three limited areas that are well separated from one another: central Europe (D. carniolensis), Honshu (D. pulcher), and the southwestern part of the USA (D. anomalus and D. limatus). In the present study, in a field survey conducted throughout Japan, specimens belonging to the genus Dicellophilus were collected from Tohoku to the Kansai region, Honshu. Morphological analysis, molecular phylogenetic analysis, and genetic distance among Dicellophilus in Japan and D. carniolensis revealed that specimens from Sendai-shi, Miyagi Pref., could be assigned to an undescribed species. This previously unrecognized species is herein described as D. praetermissus sp. nov. The new species can be distinguished from D. carniolensis and D. limatus by the number of pairs of legs (43 pairs in D. carniolensis and 45 in D. limatus, but 41 in D. praetermissus sp. nov.), from D. anomalus by the lack of a pair of setae on the posteromedian part of the clypeus and variable crenulation on the internal margin of the forcipular tarsungulum, and from D. pulcher based on the following combination of characteristics: both ends of the transverse suture not evidently convex forward; long rather than wide trochanteroprefemur; wide rather than long metasternite. [ABSTRACT FROM AUTHOR]

In this study, we present a new species of freshwater mussel in the genus PostolataDai et al., 2023, from Guangxi Province, China, by integrating morphological, anatomical, and molecular data. Postolata longjiangensis Liu & Wu, sp. nov. is distinguished from its congener (i.e., Postolata guangxiensis) by its shell shape, beak position, surface sculpture, nacre color, and hinge structure. Molecular species delimitation results based on the mitochondrial COI gene support the separation of Postolata longjiangensis Liu & Wu, sp. nov. from its congener. The multi-locus (COI + 16S rRNA + 28S rRNA) phylogeny reveals that this species forms the sister lineage to Postolata guangxiensis in the tribe Gonideini. [ABSTRACT FROM AUTHOR]

The Gaoligong Mountains, located in the western part of China's Yunnan Province adjoining northern Myanmar, harbor a striking diversity of species and endemism. Previous studies have shown that amphibian diversity in this region remains underestimated. A field survey carried out in 2023 oversaw a collection of eight Xenophrys specimens from the Tongbiguan Provincial Nature Reserve, Yunnan Province, China. Subsequent molecular analyses revealed two distinct and previously undescribed lineages. Based on morphological evidence, we formally describe one of the lineages as a new species and tentatively assign the other lineage to X. sp. due to the absence of adult specimens for examination. Our results bring the total number of Xenophrys species to 29 and the number of Xenophrys species known to occur in China to 11. Furthermore, our study reveals that five species and putative species of Xenophrys (X. dehongensis, X. glandulosa, X. periosa, X. yingjiangensis sp. nov., and X. sp.) exhibit sympatric distribution. These findings highlight the need for future research to investigate the mechanisms of sympatric coexistence in Xenophrys. In addition, our study confirms that the amphibian diversity of the Gaoligong Mountains is undoubtedly underestimated. As a result, continued exploration of amphibians in the future is necessary to obtain a clearer understanding of the overall biodiversity in this region. [ABSTRACT FROM AUTHOR]

The Barred Mudskipper (P. argentilineatus) is an amphibious fish species that displays fully terrestrial behaviour during low tides. Previous studies have indicated the existence of cryptic species of the barred mudskipper, leading to difficulties in taxonomic identification due to similarities in morphological characteristics. Therefore, this study aimed to generate DNA barcodes for Indonesian barred mudskipper populations. We collected ten specimens from Clungup Beach and Kondang Bandung Beach, representing our samples. Additionally, we incorporated 25 previously collected COI sequences from Indonesia into our analysis. The mitochondrial COI gene was amplified using PCR and analysed using various bioinformatic programs. This study provides evidence for the presence of three genetically distinct clades (A, B, and C) within the P. argentilineatus population in Indonesia, with a deep genetic divergence of 2.41% to 6.12%. Clade A showed a high genetic divergence of 5.51-6.12%, suggesting the presence of a cryptic species consistent with previous studies. The high level of haplotype diversity and low nucleotide diversity observed in each clade suggest a population bottleneck followed by a rapid expansion. The lack of geographical separation in the haplotype network analysis indicates that gene flow between populations may have been facilitated by glaciation events in the past. These findings contribute to a better understanding of the biodiversity of the barred mudskipper species in Indonesia and will aid in the accurate identification of cryptic species. This study highlights the importance of using molecular techniques to complement morphological identification in understanding the evolution and diversity of mudskipper fish species. [ABSTRACT FROM AUTHOR]

Carangidae is an economically important fish family comprised of 32 genera with more than 140 circumglobally distributed species. Its members exhibit vast differences in morphology and lifestyle, thus making them compelling subjects for evolutionary studies. Recently, more works on carangids have detected the presence of cryptic lineages through molecular and/or non-molecular techniques. Credited for its inherent amplification efficiency, mitophylogenomics became effective in opening avenues to further understand higher-level interrelationships in many fish groups. However, the mitophylogenomic approach has not yet been widely applied to infer evolutionary history at the lower-level interrelationships, especially on cryptic representatives. In this study, we evaluated the diagnostic applicability of mitogenomes in detecting population-level divergences within Carangidae. Using the mitogenomes, we detected intraspecific divergences on some taxa, namely Caranx melampygus, Selaroides leptolepis, Seriola lalandi, Decapterus maruadsi, and Trachurus trachurus, with divergences highly correspondent to that of their geographic origins. Additionally, a widespread Pacific arrangement was also detected for S. rivoliana. Our discoveries were highly corroborative with findings from other Carangidae studies which utilized different diagnostic markers (e.g., SNPs, microsatellites, morphometrics, parasites). Dated phylogeny also suggested that intraspecific diversifications occurred during the Late Neogene. Likewise, we characterized two mitogenomes from different cryptic lineages of Selaroides leptolepis and revealed that the two mitogenomes were K2P pairwise = 5.58% different from each other. Its genetic compositions included 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes, and a control region. These findings paved way for future evolutionary insights into the divergence histories of other fish populations. [ABSTRACT FROM AUTHOR]

Genetic techniques have allowed to identify a number of cryptic species of bats and to better define their distribution ranges and conservation status. Long-eared bats Plecotus spp. occur throughout Eurasia and Africa, with a high number of morphologically similar species, often occurring in sympatry. Therefore, disentangling the distribution of one species from another may be challenging. Italy represents a diversity hotspot for long-eared bats in Europe, hosting six species belonging to the genus Plecotus. In this study we report on both published and unpublished investigations on the Alpine long-eared bat Plecotus macrobullaris by integrating field and molecular methods, as well as opportunistic verified records from citizen scientists (i.e., individuals showing the diagnostic triangular chin pad in photos), to redefine the distribution of this species in Italy. We retrieved a total of 149 published records and 16 new confirmed records, namely 7 from iNaturalist, 6 from Facebook and 3 from molecular analyses. In Italy, the species occurs throughout the Alpine and Pre-Alpine chain, as well as in close proximity to the sea, and in Northeastern plains. Based on new records, we proved that it occurs also in other areas, including the Northern Apennine ridge. Our findings call for the application of an integrated approach in investigating cryptic species, that provides valuable data to support conservation assessments and the establishment of proper protection measures for poorly known species. [ABSTRACT FROM AUTHOR]

Accurate identification of agricultural pests is a major component of integrated pest management. The seedcorn maggot, Delia platura (Meigen) (Diptera: Anthomyiidae), is a cosmopolitan polyphagous pest species that may be found in high numbers in numerous crops. Two morphologically identical genetic lines of D. platura (H and N) with distinct distributions were recently identified. To date, no study has investigated the reproductive compatibility of the two lines and thus the possibility that they may actually be two unique biological entities. A previous study described the reproductive traits of the two lines and suggested that H‐line females are highly selective toward the male with which they mate, pointing to a possible pre‐mating isolation mechanism between the lines. Using laboratory‐reared colonies originating from the Montérégie region in Québec, Canada, this study investigates the reproductive compatibility of the two D. platura lines. We found that only one of 30 H‐line females was inseminated by an N‐line male, further suggesting mate choice as a pre‐mating isolation mechanism between the lines. However, N‐line females were readily inseminated by H‐line males, suggesting a lack of pre‐mating isolation in this type of cross. The eggs laid by N‐line females mated with H‐line males had a lower hatching rate than the ones laid by females of intraline crosses, suggesting either post‐mating pre‐zygotic or post‐zygotic partial isolation. However, the larvae that did hatch had a comparable developmental success to those from intraline crosses in terms of survival and developmental time from larval hatching to adult emergence, pupal mass, and adult sex ratio, suggesting a lack of post‐zygotic isolation for these life stages. Considering the different biological traits of the two lines, we suggest the use of the 'biotype' terminology to designate the two biological entities and discuss their implications for integrated pest management. [ABSTRACT FROM AUTHOR]

The Calotes genus presents a challenge due to the complexity of its species. However, research on the cryptic species complex within the Indonesian Calotes genus is still lacking. This study aims to determine the extent of genetic relationships and assess the potential existence of a species complex within the Indonesian genus Calotes (Daudin, 1802) (Squamata, Agamidae) using the partial Cytochrome c Oxidase Subunit 1 (COI) gene sequence as a molecular marker. Samples of the Indonesian Calotes genus in this study were collected from South Lampung (Lampung), Bogor (West Java), and Langkat (North Sumatra). By aligning 582 bp sequence similarities with reference sequences in GenBank, we confirmed that seven out of eight samples analyzed belonged to Calotes vultuosus, while one sample was identified as Calotes versicolor. The identity values ranged from 96 to 100%. The C. vultuosus samples in this study displayed lower genetic distances, ranging from 0 to 3%, with the reference C. vultuosus sequence from Indonesia compared to the reference sequence from India, which ranged from 6 to 9%. Phylogenetic tree reconstruction, utilizing both maximum likelihood with IQ-Tree and Bayesian Inference with BEAST methods, further supports these findings. It reveals distinct groupings between C. vultuosus samples from Indonesia and India. These results suggest the potential occurrence of a species complex within the Indonesian genus Calotes. Furthermore, the inclusion of eight COI gene sequences from two Calotes species in the GenBank database has the potential to confirm the existence of previously undocumented species in Indonesia. [ABSTRACT FROM AUTHOR]

In this work, we describe a new species of the genus Oreonectes, Oreonectes yuedongensis sp. nov., collected from the Lianhua Mountains in eastern Guangdong, China. Phylogenetic trees constructed based on the mitochondrial cytochrome b (Cyt b) gene showed that this new species represents an independent evolutionary lineage, with uncorrected genetic distances (Kimura 2‐parameter model) from congeners ranging from 5.1% to 8.3%. In addition, nuclear DNA analysis indicated O. yuedongensis as an independent lineage separate from its closely related species. Morphologically, the new species can be distinguished from other six species in the genus Oreonectes by a combination of serial characters. The description of this new species suggests that it is necessary to reassess the biodiversity of Oreonectes platycephalus as a complex, especially in the middle reaches of the Pearl River near the border between Guangdong and Guangxi. Morphological and genetic evidence supports O. yenlingi as a synonym of O. platycephalus. [ABSTRACT FROM AUTHOR]

The Atlantic Forest is recognized as a biodiversity hotspot because of the high species richness and the remaining natural areas comprising less than 30% relative to its primary vegetation. Even though many anuran species from this biome are ecologically restricted to pristine ecosystems, there are some examples of new species discovered from anthropized areas. Adenomera represents a widespread and abundant frog genus in Atlantic Forest ecosystems, with species occurring in areas with varying degrees of human disturbance. In this paper, we name and describe a new species of Adenomera endemic to the Atlantic Forest typically found in human-altered ecosystems, such as urban and rural sites. The new species was recovered as belonging to the Adenomera marmorata clade, and sister to A. ajurauna. These two species have allopatric distributions in southeastern and southern Brazil, with a single known sympatric occurrence. They display different calls and occupy distinct habitats. The newly described species of Adenomera is an additional case of new species discovered from urban sites in the Atlantic Forest hotspot. [ABSTRACT FROM AUTHOR]

Freshwater bivalves (Bivalvia, Unionida) are one of the most threatened groups of animals in the world. Defining species boundaries and understanding the phylogeny and genetic diversity of these species is key to guiding their conservation and management. However, the presence of significant phenotypic plasticity and convergence within this group complicates species delimitation. This includes the freshwater mussel genus Nodularia, endemic to East Asia, for which a comprehensive understanding of species diversity and phylogenetic relationships remains elusive due to inadequate sampling in previous studies, particularly in China, a widely recognized biodiversity hotspot for freshwater mussels. Here, we conduct comprehensive taxonomic and phylogenetic analyses of Nodularia species based on extensive sampling across 23 provinces in China and multiple data sources, including shell morphology, soft body anatomy, six‐gene (COI + ND1 + 16S + 18S + 28S + histone H3) and mitogenome datasets. The integrative systematics approach used here reveals 10 distinct species in this genus, four of which are new to science, i.e. Nodularia hanensis sp. nov., Nodularia huana sp. nov., Nodularia fusiformans sp. nov., Nodularia dualobtusus sp. nov. and two of which are new records for China, i.e. Nodularia dorri (Wattebled [Journal de Conchyliologie, 34, 1886, 54]) and Nodularia micheloti (Morlet [Journal de Conchyliologie, 34, 1886, 75]). We also propose that the nominal species Nodularia jourdyi (Morlet [Journal de Conchyliologie, 34, 1886, 75]) syn. nov. is a new synonym for Nodularia douglasiae (Griffith & Pidgeon, 1833) based on molecular data. BI, ML, and BEAST analyses based on the six‐gene dataset and mitochondrial phylogenomics consistently support the following phylogenetic relationships: (N. dorri + (N. hanensis sp. nov. + N. micheloti)) + (N. breviconcha + (N. huana sp. nov. + (N. fusiformans sp. nov. + ((N. nuxpersicae + N. nipponensis) + (N. dualobtusus sp. nov. + N. douglasiae))))). The molecular clock with fossil calibration indicates that Nodularia originated in the Late Cretaceous period (ca. 73.78 Mya). It then diverged into two independent clades during the Middle Paleogene (ca. 45.01 Mya), followed by a rapid burst of extant speciation during the Neogene (mean age 28.28 to 4.79 Mya). Nodularia breviconcha is the earliest differentiated taxon among the 10 Nodularia taxa, appearing during the Paleogene‐Neogene transition (28.28 Mya; 95% HPD = 14.35–48.44 Mya). Taken together, we provide a robust systematic framework for Nodularia species, addressing phylogenetic relationships, taxonomy, and evolutionary history of this group. [ABSTRACT FROM AUTHOR]

The terrestrial isopod genus Ligidium includes 58 species from Europe, Asia, and North America. In Eastern North America four species are recognized: L. floridanum and L. mucronatum, known just from their type localities in Florida and Louisiana respectively, L. blueridgensis, endemic to the southern Appalachians, and L. elrodii, widespread from Georgia to Ontario. The genus shows a marked morphological conservatism, and species are differentiated mostly by small morphological differences; it is not always easy to determine if such variability represents inter‐ or intraspecific variation. Here, we explore the diversity of Ligidium from the southern Appalachian Mountains, exploring the congruence of morphologically defined groups with multilocus phylogenetic reconstructions and molecular species delimitation methods. We have studied a total of 130 specimens from 37 localities, mostly from the southern Appalachians, and analysed mtDNA (Cox1) and nuclear (28S, NaK) sequences. Morphologically, we recognized eight morphotypes, most of them assignable to current concepts of L. elrodii and L. blueridgensis. Phylogenetic analyses supported the evolutionary independence of all morphotypes, and suggest the existence of 8–9 species, including limited cryptic diversity. Single‐locus delimitation analyses based on mtDNA data suggest the existence of a much higher number of species than the multilocus analyses. The estimated age of the ancestors of sampled lineages indicates a long presence of the genus in eastern North America and old speciation events through the Miocene. Our results indicate a higher diversity than previously thought among the Ligidium populations present in the southern Appalachian Mountains, with several species to be described. [ABSTRACT FROM AUTHOR]

Genital morphology, a cornerstone in taxonomy that predates Linnaeus's Systema Naturae , is vital for species delimitation. However, the widely accepted paradigm that genitalia are taxonomically informative lacks robust testing between closely related species, and supporting evidence is often limited to taxonomic literature in which genitalia are assumed a priori to be species-specific. The cosmopolitan ant genus Nylanderia Emery includes 123 described species, with most in the Neotropics still undescribed. Workers are often morphologically cryptic, and males are rare in collections but required for morphological delimitation. Using Ultraconserved Elements (UCEs) from 236 samples, including 53 Neotropical Nylanderia species, we reconstructed a phylogenetic framework to compare the genitalia (gonopods) of males collected alongside workers. We used geometric morphometrics on images of slide-mounted genitalia from 16 species and nano-CT scans of Nylanderia fulva (Mayr) and Nylanderia pubens (Forel) genital capsules and interpreted results considering phylogeny under maximum likelihood and the multispecies coalescent. We found strong morphological and molecular support for 2 distantly related American clades, identifiable by gonopod shape, with significant differences observed among most species. Three previously reported COI clades of N. fulva were not supported as monophyletic, nor were their gonopods significantly different. However, N. pubens was supported as distinct by all phylogenetic and 3DGM results. Our findings emphasize the importance of male genitalia for delimiting species boundaries and revising Neotropical Nylanderia. Given their importance, particularly in morphologically cryptic taxa, we recommend a greater focus on linking male and worker phenotypes, which can be facilitated through comprehensive nest series collection. [ABSTRACT FROM AUTHOR]

Background: The Neotropics harbors the largest species richness of the planet; however, even in well-studied groups, there are potentially hundreds of species that lack a formal description, and likewise, many already described taxa are difficult to identify using morphology. Specifically in small mammals, complex morphological diagnoses have been facilitated by the use of molecular data, particularly from mitochondrial sequences, to obtain accurate species identifications. Obtaining mitochondrial markers implies the use of PCR and specific primers, which are largely absent for non-model organisms. Oxford Nanopore Technologies (ONT) is a new alternative for sequencing the entire mitochondrial genome without the need for specific primers. Only a limited number of studies have employed exclusively ONT long-reads to assemble mitochondrial genomes, and few studies have yet evaluated the usefulness of such reads in multiple non-model organisms. Methods: We implemented fieldwork to collect small mammals, including rodents, bats, and marsupials, in five localities in the northern extreme of the Cordillera Central of Colombia. DNA samples were sequenced using the MinION device and Flongle flow cells. Shotgun-sequenced data was used to reconstruct the mitochondrial genome of all the samples. In parallel, using a customized computational pipeline, species-level identifications were obtained based on sequencing raw reads (Whole Genome Sequencing). ONT-based identifications were corroborated using traditional morphological characters and phylogenetic analyses. Results: A total of 24 individuals from 18 species were collected, morphologically identified, and deposited in the biological collection of Universidad EAFIT. Our different computational pipelines were able to reconstruct mitochondrial genomes from exclusively ONT reads. We obtained three new mitochondrial genomes and eight new molecular mitochondrial sequences for six species. Our species identification pipeline was able to obtain accurate species identifications for up to 75% of the individuals in as little as 5 s. Finally, our phylogenetic analyses corroborated the identifications from our automated species identification pipeline and revealed important contributions to the knowledge of the diversity of Neotropical small mammals. Discussion: This study was able to evaluate different pipelines to reconstruct mitochondrial genomes from non-model organisms, using exclusively ONT reads, benchmarking these protocols on a multi-species dataset. The proposed methodology can be applied by non-expert taxonomists and has the potential to be implemented in real-time, without the need to euthanize the organisms and under field conditions. Therefore, it stands as a relevant tool to help increase the available data for non-model organisms, and the rate at which researchers can characterize life specially in highly biodiverse places as the Neotropics. [ABSTRACT FROM AUTHOR]

Cyanobacterial taxonomy is entering the genomic era, but only a few taxonomic studies have employed population genomics, which provides a framework and a multitude of tools to understand species boundaries. Phylogenomic and population genomic analyses previously suggested that several cryptic lineages emerged within the genus Laspinema. Here, we apply population genomics to define boundaries between these lineages and propose two new cryptic species, Laspinema olomoucense and L. palackyanum. Moreover, we sampled soil and puddles across Central Europe and sequenced the 16S rRNA gene and 16S‐23S ITS region of the isolated Laspinema strains. Together with database mining of 16S rRNA gene sequences, we determined that the genus Laspinema has a cosmopolitan distribution and inhabits a wide variety of habitats, including freshwater, saline water, mangroves, soil crusts, soils, puddles, and the human body. [ABSTRACT FROM AUTHOR]

A group of fanged frogs from Southeast and East Asia has long been considered a single widespread species Limnonectes kuhlii, but occurrence in this group of many cryptic species has recently been demonstrated mainly in the continent through molecular phylogenetic analyses. This led to similar analyses of populations from other parts of the known range, and phylogenetic relationships inferred for frogs from the island of Borneo through mitochondrial and nuclear DNA resulted in the presence of nearly 20 distinct lineages. We studied morphological variation in 13 of these lineages from the Malaysian part and confirmed their taxonomically distinct statuses. We applied existing names to three of them, L. conspicillatus, L. kong, and L. mocquardi, and described 10 remaining ones as new species. [ABSTRACT FROM AUTHOR]

While the presence of morphologically cryptic species is increasingly recognized, we still lack a useful understanding of what causes and maintains co‐occurring cryptic species and its consequences for the ecology, evolution, and conservation of communities. We sampled 724 Pocillopora corals from five habitat zones (the fringing reef, back reef, and fore reef at 5, 10, and 20 m) at four sites around the island of Moorea, French Polynesia. Using validated genetic markers, we identified six sympatric species of Pocillopora, most of which cannot be reliably identified based on morphology: P. meandrina (42.9%), P. tuahiniensis (25.1%), P. verrucosa (12.2%), P. acuta (10.4%), P. grandis (7.73%), and P. cf. effusa (2.76%). For 423 colonies (58% of the genetically identified hosts), we also used psbAncr or ITS2 markers to identify symbiont species (Symbiodiniaceae). The relative abundance of Pocillopora species differed across habitats within the reef. Sister taxa P. verrucosa and P. tuahiniensis had similar niche breadths and hosted the same specialist symbiont species (mostly Cladocopium pacificum) but the former was more common in the back reef and the latter more common deeper on the fore reef. In contrast, sister taxa P. meandrina and P. grandis had the highest niche breadths and overlaps and tended to host the same specialist symbiont species (mostly C. latusorum). Pocillopora acuta had the narrowest niche breadth and hosted the generalist, and more thermally tolerant, Durusdinium gynnii. Overall, there was a positive correlation between reef habitat niche breadth and symbiont niche breadth—Pocillopora species with a broader habitat niche also had a broader symbiont niche. Our results show how fine‐scale variation within reefs plays an important role in the generation and coexistence of cryptic species. The results also have important implications for how niche differences affect community resilience, and for the success of coral restoration practices, in ways not previously appreciated. [ABSTRACT FROM AUTHOR]

The heteroplasmic mitogenome of the stingless bee Tetragonula laeviceps from Peninsular Malaysia consists of two variants (TL1-1 and TL1-2), both with 29,084 bp consisting of two segments: the “canonical” segment contains 36 genes—13 protein-coding genes (PCGs), 2 rRNA, and 21 tRNA genes; and the inverted repeat segment consists of 31 genes (11 PCGs, 2 rRNAs, and 18 tRNAs). In the TL1-2 variant, the (nad4-nad4L-trnP-trnS1) gene segment in the “canonical” genome of the TL1-1 variant was inverted to (trnS1-trnP-nad4-nad4L). Phylogenetic analyses based on 13 PCGs and 15 mt-genes reveal that T. laeviceps from Peninsular Malaysia and China form a lineage in the subclade consisting also of the Tetragonula lineage of T. mellipes, T. davenporti, T. carbonaria, and T. hockingsi. The genetic distances of 13 PCGs and 15 mt-genes between T. laeviceps of Peninsular Malaysia and China (p = over 10%) and between the taxa of China (p = about or over 10%) indicate that these three taxa are genetically distinct, reflecting the presence of a species complex. The large genetic distances, based on COX1 sequences, of p = over 10% among the taxa of T. laeviceps of China, Peninsular Malaysia, Sabah, Indonesia, and India indicate beyond reasonable doubt that they are not conspecific. Assuming that the Peninsular Malaysian taxon is T. laeviceps s.str., the taxa of China, Sabah, Indonesia, and India (as well as Thailand based on the 16S rRNA gene) warrant to be accorded as distinct cryptic species. Likewise, the taxonomic status of some taxa (e.g., Tetragonula fuscobalteata of Sabah and Sulawesi) needs clarification. [ABSTRACT FROM AUTHOR]

Taxonomy underpins biological research because names are needed for comparative analysis, conservation status, and public communication. Despite this, many species remain undescribed and are therefore vulnerable and unprotected, particularly in the tropics. Neotropical Staphylinidae beetles (Coleoptera) are among the insect groups most likely to contain significant unknown and/or cryptic diversity. Here we used an integrative taxonomic framework to conduct a preliminary review of one particularly diverse genus of Staphylinidae (Anotylus) in Área de Conservaciόn Guanacaste, northwestern Costa Rica. We began by DNA barcoding novel collections and using Barcode Index Numbers (BINs) as an estimate of taxonomic diversity; we found 18 provisional new species. We augmented this genetic analysis with a morphometric analysis of adult morphological characters and found that we could differentiate most provisional species by external morphology as well as by elevation of collection. All the most abundant species could be differentiated from each other by differences in body size. One BIN included slight (~1%) genetic variation that corresponded with some morphological differentiation suggesting the existence of two species within a DNA BIN. Our results support the efficacy of DNA barcoding collections of tropical insects as an effective biodiversity estimator, one that can be used as a primer for integrative taxonomic studies using BINs as species hypotheses. [ABSTRACT FROM AUTHOR]