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Meristic characters are often used to differentiate between closely related forms, morphs, and species of fishes, and lend insight into ecology and post‐glacial recolonization in taxa with complicated or contentious phylogenies, including the genus Salvelinus. Previous studies of meristics in Salvelinus have focused mostly on individual populations. We collated data from 456 populations/systems across the North American and Russian Arctic and sub‐Arctic, and found that counts of pyloric caeca and gill rakers differed consistently between fish visually and/or genetically identified as Arctic char and Dolly Varden across their distributional ranges. [ABSTRACT FROM AUTHOR]

Spelt products are popular with consumers achieving higher market prizes, making them susceptible to food adulteration with less valuable cereals. To facilitate product control, a recently developed duplex droplet digital PCR method enables the detection and quantification of common wheat (Triticum aestivum) contaminations in food products made from spelt (Triticum spelta). The duplex droplet digital PCR assay targets the γ-gliadin gene and the Q-locus of both subspecies. In this study, the method was validated in an interlaboratory ring trial involving 11 participating laboratories. Test materials containing defined proportions of spelt and common wheat were prepared and tested. The ring trial procedure included DNA extraction of the test samples and determination of subspecies proportions using droplet digital PCR. Results from the ring trial confirmed the method's capability for specific detection and quantification of common wheat in spelt, with acceptable relative measurement uncertainties, and without requiring reference material for calibration. To our knowledge, this is the first interlaboratory validation of a digital PCR method for species differentiation in food. [ABSTRACT FROM AUTHOR]

The Hibiscus genus of the Malvaceae family is widely distributed and has diverse applications. Hibiscus sinosyriacus is a valuable ornamental tree, but it has not been extensively researched. This study aimed to complete the chloroplast genome of H. sinosyriacus and elucidate its evolutionary relationship with closely related species and genera. The complete chloroplast genome of H. sinosyriacus was found to be 160,892 bp in length, with annotations identifying 130 genes, including 85 coding genes, 37 tRNAs, and 8 rRNAs. Interspecific variations in the Hibiscus spp. were explored, and H. sinosyriacus has species-specific single-nucleotide polymorphisms in four genes. Genome structure analysis and visualization revealed that in the Abelmoschus genus, parts of the large single-copy region, including rps19, rpl22, and rps3, have been incorporated into the inverted repeat region, leading to a duplication and an increase in the number of genes. Furthermore, within the Malvales order, the infA gene remains in some genera. Phylogenetic analysis using the whole genome and coding sequences established the phylogenetic position of H. sinosyriacus. This research has further advanced the understanding of the phylogenetic relationships of Hibiscus spp. and related genera, and the results of the structural and variation studies will be helpful for future research. [ABSTRACT FROM AUTHOR]

Objectives This study aims to determine what pathologic and clinical factors differentiate Brachyspira species that may be useful to clinicians and pathologists. Methods We identified 21 studies of Brachyspira infection with individual patient information (n = 113) and conducted a pooled analysis comparing each species. Results There were differences in the pathologic and clinical profiles of each Brachyspira species. Patients infected with Brachyspira pilosicoli infection were more likely to have diarrhea, fever, HIV, and immunocompromised conditions. Those patients infected with Brachyspira aalborgi were more likely to have lamina propria inflammation. Conclusions Our novel data provide potential insights into the pathogenic mechanism(s) and the specific risk factor profile of Brachyspira species. This may be clinically useful when assessing and managing patients. [ABSTRACT FROM AUTHOR]

Efficient tools for the identification and discrimination of species are imperative in wildlife conservation since they can endow with information of species exploitation and also abet in solving problems related to forensic science. Herein, a non-destructive and rapid analytical method (ATR-FTIR Spectroscopy) coupled with PCA and PLS-DA was employed to analyze the dry blood samples for the species discrimination. Asian Elephant (Elephas maximus), Indian Leopard (Panthera pardus fusca), and Royal Bengal Tiger (Panthera tigris tigris) species were used to construct the chemometric models. Additionally, Domestic Pig (Sus scrofa domesticus) and Human (Homo sapiens) blood were taken for the external validation study. The evaluation results illustrate that the ATR FT-IR Spectroscopy in combination with PLS-DA model showed statistically confident discrimination among selected species from dry blood traces. ATR-FTIR spectroscopy supported with predictive models has been a robust, ideal, and suitable tool for species discrimination from dry blood traces recovered in wildlife investigations.

Understanding the genetic structure and differentiation in endangered species is of significance in detecting their phylogenetic relationships and prioritizing conservation. Here we sampled five endangered Cycas species endemic to southwest China and genotyped genetic structure and differentiation among them using the genotyping-by-sequencing (GBS) method. C. hongheensis showed high genetic diversity, but the other four species showed low genetic diversity. The genetic diversity between wild and cultivated populations was similar for C. debaoensis and C. guizhouensis, respectively. Low genetic differentiation and high gene flow were found among C. debaoensis, C. guizhouensis, and C. fairylakea, and C. hongheensis differentiated from them at ~1.74 Mya. TreeMix results showed historic migration events from C. guizhouensis to C. hongheensis, showing southward migration pathways. C. hongheensis showed increased effective population size with time, while the other four species underwent bottleneck events at ~1–5 Mya when continuous cooling events occurred. Our results indicate that the migration, differentiation, and speciation of Cycas species are associated with historical cooling events. [ABSTRACT FROM AUTHOR]

Impatiens namchabarwensis was described as a new species in 2005 by Morgan et al. As already mentioned in the species description, I. namchabarwensis is morphologically similar to I. arguta and the small range of I. namchabarwensis in the eastern Himalaya is nested within the large, Himalayan range of I. arguta. Therefore, I. namchabarwensis has frequently been treated as synonym of I. arguta (e.g. in the Flora of China). We compared plant longevity, flower morphology and other functional floral traits and analyzed the differences between the two taxa. We found that I. namchabarwensis is a short‐lived perennial reaching maximally three years whereas I. arguta is a long‐lived perennial. Further, the floral traits of the two species differ significantly. These differences are also reflected in the main pollinator groups of the two species, which are hawk moths for I. namchabarwensis and bumblebees for I. arguta. Hence, we follow the argumentation of Morgan et al. and conclude that I. namchabarwensis and I. arguta are two distinct species. [ABSTRACT FROM AUTHOR]

Closely related species have been used as representative systems to investigate the genetic mechanisms involved in the early stages of species differentiation. Previous studies have indicated that variation in gene expression might be a sensitive indicator of initial species divergence, although the role of expression divergence, and especially that associated with phenotypic variation remained relatively undefined. For three organs (cochlea, brain, and liver) from two closely related bat species (Rhinolophus siamensis and R. episcopu s), the interspecific and intersubspecific gene expression profiles were compared using transcriptomics in this study. Striking organ specificity of expression was observed, and expression profiles exhibited similarities between cochlea and brain tissues. Numerous differentially expressed genes (DEGs) were identified for each organ in the interspecific comparison (cochlea/brain/liver: 1,069/647/692) and intersubspecific comparison (608/528/368). Functional enrichment analysis indicated vital variation in expression related to the immune system, ion activities, neuronal function, and multisensory system regulation in both comparisons. DEGs relevant to the variation in echolocation calls (RF) were found, and some of them were involved in the pivotal patterns of expression variation. The regulation of immune, ion channel, neural activity, and sophisticated sensory functions at the expression level might be key mechanisms in the early species divergence of bats, and the expression variation related to acoustical signal could have played a crucial part. This study expands our knowledge of gene expression and patterns of variation for three key organs to echolocation at both the interspecific and intersubspecific levels. Further, the framework described here provides insight into the genetic basis of phenotypic variation during the incipient stage of species differentiation. [ABSTRACT FROM AUTHOR]

When bones are found within archaeological contexts it is important for site interpretation that they are identified by species, or at the very least as human or non‐human. However, key landmarks and characteristics typically used for such an assessment are often destroyed when bones are highly fragmented; thus methods including DNA or histology are amongst the few remaining options. Histological analysis of cortical tissue can be performed to discriminate human from non‐human origin. A set of 40 bone fragments recovered during excavation of the Camposanto cemetery on the island of Lazzaretto Nuovo (Venice, Italy), used to accommodate mass plague deaths from 1468 ce, were histologically determined to be of non‐human origin. Histomorphometric analysis of secondary osteons and Haversian canals, and non‐metric assessment of plexiform, osteonal and non‐plexiform fibrolamellar tissue, were applied to determine the most probable species origin. Discriminant function analysis established by Martiniaková and co‐workers in 2006, was applied, resulting in 36 samples classified as pig and four as cattle. This is consistent with the island's use as a quarantine station during this period when imported cattle were housed to avoid the spread of disease. These results further enhance the understanding of the Lazzaretto Nuovo site. [ABSTRACT FROM AUTHOR]

Quercus robur and Q. petraea are, in addition to Fagus sylvatica, the main economically used deciduous tree species in Europe. Identification of these two species is crucial because they differ in their ecological demands. Because of a changing climate, foresters must know more than ever which species will perform better under given environmental conditions. The search for differentiating molecular markers between these two species has already lasted for decades. Until now, differentiation has only been possible in approaches with a combination of several molecular markers and a subsequent statistical analysis to calculate the probability of being one or the other species. Here, we used MiSeq Illumina data from pools of Q. robur and Q. petraea specimens and identified nuclear SNPs and small InDels versus the Q. robur reference genome. Selected sequence variants with 100% allele frequency difference between the two pools were further validated in an extended set of Q. robur and Q. petraea specimens, and then the number of markers was deliberately reduced to the smallest possible set for species differentiation. A combination of six markers from four nuclear regions is enough to identify Q. robur, Q. petraea or hybrids between these two species quite well and represents a marker set that is cost-efficient and useable in every laboratory. [ABSTRACT FROM AUTHOR]

[Display omitted] • Integrated ATR-FTIR and AI algorithms for determining and discriminating fungal species. • Large samples are analyzed via serial connection with an UART module. • The study uses three intelligent classification methods: ANN, SVM, and KNN. • The system achieved 100% accuracy in few milliseconds. Food safety became one of the most critical issues owing to the large expansion of international trading and emission of various pollutants in air, water and soil. Fungal contamination of food and feed has attracted most of the attention in the last decade because of the emerging analytical tools that facilitate the detection and discrimination of fungal species in imported foodstuff, seeds, grains, plants, meats ...etc. In this work, we give an insight on the application of integrated attenuated total reflection–Fourier transform infrared (ATR–FTIR) spectroscopy and artificial–intelligence algorithms to the determination and discrimination of fungal species/strains which potentially infect plants, seeds and grains. The proposed method is based on a microcontroller which allows the PC to analyze a large number of samples via serial connection with an UART module. Penicillium chrysogenum , Aspergillus niger , Aspergillus fumigatus , Aspergillus solani , Aspergillus flavus and two different strains of Fusarium oxysporum were used as model microorganisms. The use of artificial–intelligence algorithms herein provides the advantage of automation enabling high throughput screening of large numbers of food samples in less than 5 s. In addition, the classification accuracy is enhanced by applying these machine–learning classification techniques. Principle component analysis (PCA) was used in order to extract the spectral discriminative features from the recorded fungal FTIR spectra. Three intelligent methods of classification; namely, artificial neural network (ANN), support–vector machine (SVM) and k–nearest neighbor (KNN), were used in this study in order to prove that integration of spectroscopic measurements with varying machine–learning methods give a simple analytical tool for detection and classification of foodborne pathogens. All the utilized classifiers gave an accuracy of 100 % and were able to discriminate different species and/or strains of the investigated fungi in few milliseconds. [ABSTRACT FROM AUTHOR]

Societal Impact Statement The largest populations of veteran oak trees in Europe are found in British parklands: managed wood pastures up to 1000 years old. Here, we present genomic evidence that parkland oak populations harbour considerable diversity and grew from local seed sources. We found some evidence for natural regeneration of offspring and for hybridization between pedunculate and sessile oak. We detected signatures of past gene flow between these two species and few regions of high differentiation within their genomes. Future expansion of this dataset may allow us to test for a genomic basis of acute oak decline, a syndrome of particular concern in parkland environments. Summary The two predominant oak species in Europe, Quercus robur (English or pedunculate oak) and Quercus petraea (sessile oak), have a long history of human intervention. In Britain, a common management regime is parklands, often surrounding country houses. Little is known about how seeds were sourced for parkland oak populations nor the genetic diversity that they contain. We sequenced the whole genomes of 386 trees from four British parkland sites to characterize the nuclear and chloroplast genetic structure and diversity of oak parkland populations. We assembled the chloroplast genomes and matched these to restriction enzyme fragment chloroplast haplotypes found in previous studies of ancient woodlands. We found over two million high‐quality nuclear single‐nucleotide polymorphisms (SNPs), allowing us to identify 360 Q. robur, 10 Q. petraea and 16 hybrid individuals with confidence. We identified 81 coding regions exhibiting strong differentiation between the two species. We found evidence for selective sweeps in Q. robur near some regions containing genes with putative involvement in stress tolerance. We detected a few very close relatives within some sites, suggesting natural regeneration or local seed planting. There was little differentiation among the Q. robur populations at the four sites. Chloroplast genomes found in each parkland tended to be similar to those of local ancient woodlands, suggesting that they were derived from local seed sources.

The structure of the first upper molar (M1) of the brown bear (Ursus arctos) and he polar bear (U. maritimus) was studied. Seven features of polymorphism were identified, and descriptions were given. The M1 in the mainland populations of U. arctos displays no high morphological variability, whereas the populations of U. arctos from Hokkaido are distinguished by a large number of rare morphotypes and a greater complexity. In general, the M1 in brown bears and polar bears is not a highly variable tooth character compared to the incisors and premolars. In evolutionary terms, variations in the M1 structure are rather weak in the genus Ursus. The brown bear is shown to be reliably distinguished from the polar bear based on the M1 structure. The polar bear teeth vary in a peculiar way that does not coincide with the traditional scenario of tooth change in hypercarnivorous predators. Ursus arctos has a large number of progressive features in the structure of M1, while M1 in U. maritimus combines both progressive and primitive traits, as well as some features characteristic of only this species. [ABSTRACT FROM AUTHOR]

Though the karst regions in south and southwest China are plant diversity hotspots, our understanding of the phylogeography and evolutionary history of the plants there remains limited. The genus Heteroplexis (Asteraceae) is one of the typical representative plants isolated by karst habitat islands, and is also an endangered and endemic plant to China. In this study, species-level phylogeographic analysis of the genus Heteroplexis was conducted using restriction site-associated DNA sequencing (RADseq). The genetic structure showed a clear phylogeographic structure consistent with the current species boundaries in the H. microcephala, H. incana, H. vernonioides, H. sericophylla, and H. impressinervia. The significant global (R = 0.37, P < 0.01) and regional (R = 0.650.95, P < 0.05) isolation by distance (IBD) signals among species indicate strong geographic isolation in the karst mountains, which may result in chronically restricted gene flow and increased genetic drift and differentiation. Furthermore, the phylogeographic structure of Heteroplexis suggested a southward migration since the last glacial period. Demographic analysis revealed the karst mountains as a refuge for Heteroplexis species. Finally, both Treemix and ABBA-BABA statistic detected significant historical gene flow between species. Significant historical gene flow and long-term stability of effective population size (Ne) together explain the high genomewide genetic diversity among species (p = 0.05370.0838). However, the recent collapse of Ne, widespread inbreeding within populations, and restricted contemporary gene flow suggest that Heteroplexis species are probably facing a high risk of genetic diversity loss. Our results help to understand the evolutionary history of karst plants and guide conservation. [ABSTRACT FROM AUTHOR]

Lactococcosis is a bacterial infection that is characterized by the appearance of septicemia in fish. Traditionally, the identification of causes of disease outbreaks in aquaculture poses a major challenge due to their comparable characteristics. In this study, simple PCR and sequencing based on the tuf gene were developed to identify isolates belonging to the Streptococcaceae family. The outbreaks of lactococcosis in rainbow trout have been mainly associated with Lactococcus garvieae , but the emergence of closely related species, Lactococcus petauri and Lactococcus formosensis pose a challenge in accurate identification. The study aimed to identify Gram-positive catalase-negative cocci and differentiate between Lactococcosis-causing bacteria (LCB) in rainbow trout isolates associated with lactococcosis outbreaks in Iran. Seventy-five Gram-positive cocci strains from diseased rainbow trout were tested using a PCR and sequencing method targeting the tuf gene. Sequence and phylogenetic analyses were conducted to distinguish between closely related Lactococcus species. The PCR results revealed a successful amplification with tuf gene primers for all strains, allowing species identification. The sequence analysis showed that all 29 isolates initially identified as L. garvieae were 100% identical to L. petauri , indicating a previous misclassification. This work is the first report by L. petauri of Iran. Analysis of tuf gene sequences revealed different patterns of single nucleotide polymorphism (SNP) for accurate species differentiation and phylogenetic analysis confirmed different clusters for LCB. The study highlights the misidentification of L. petauri as L. garvieae in lactococcosis outbreaks and the importance of accurate species differentiation in disease management. The tuf gene sequencing method shows promise for practical, cost-effective, and accurate differentiation of closely related streptococcal species in aquaculture. These findings strongly indicate the need to re-evaluate the initial identification of isolates from fish with lactococcisis. The findings of this study also suggest that the tuf gene sequencing, established in this research for its practicality and cost-efficiency, could potentially be integrated into routine diagnostic procedures for Gram-positive, catalase-negative cocci associated with outbreaks of infections in aquatic animals; however, further experimental works are warranted. • Lactococcus petauri is pathogenic to rainbow trout in Iran. • The analysis of the tuf gene sequence allowed for the correct identification of Gram-positive catalase-negative cocci • The analysis of the tuf gene sequence is capable of discrimination between L. garvieae and L. petauri. • This is the first report of L. petauri in Iran. [ABSTRACT FROM AUTHOR]

Understanding the genetic structure and differentiation in endangered species is of significance in detecting their phylogenetic relationships and prioritizing conservation. Here we sampled five endangered Cycas species endemic to southwest China and genotyped genetic structure and differentiation among them using the genotyping-by-sequencing (GBS) method. C. hongheensis showed high genetic diversity, but the other four species showed low genetic diversity. The genetic diversity between wild and cultivated populations was similar for C. debaoensis and C. guizhouensis, respectively. Low genetic differentiation and high gene flow were found among C. debaoensis, C. guizhouensis, and C. fairylakea, and C. hongheensis differentiated from them at ~1.74 Mya. TreeMix results showed historic migration events from C. guizhouensis to C. hongheensis, showing southward migration pathways. C. hongheensis showed increased effective population size with time, while the other four species underwent bottleneck events at ~1–5 Mya when continuous cooling events occurred. Our results indicate that the migration, differentiation, and speciation of Cycas species are associated with historical cooling events.

Tuberculosis (TB) is one of the deadliest diseases worldwide, caused by members of Mycobacterium tuberculosis complex (MTBC), commonly by Mycobacterium tuberculosis (Mtb) and Mycobacterium bovis. In Malaysia, Sabah is one of the states of public health concern with the highest TB cases. Clinical presentations of TB and non-tuberculous mycobacteria (NTM) lung disease are similar, and mycobacteria appear to be identical under standard diagnosis with sputum smear microscopy, causing difficulty to diagnose TB. Identification of Mycobacterium species is essential for effective management of mycobacterial diseases treatment and their control strategy. Thus, this study aimed to identify the Mycobacterium species from suspected TB patients in Sabah using molecular methods. Sputum samples (n=595) were screened with GeneXpert MTB/RIF (Xpert), and positive TB samples (n=67) were processed and cultured in BACTEC MGIT. Forty-five isolates were successfully recovered in MGIT and characterisation of the mycobacterial isolates using PCR and/or sequencing with rpoB, RD9, hsp65, and 16S rRNA genes confirmed the presence of Mtb in 41 samples, and four non-mycobacteria, i.e. Microbacterium laevaniformans, Streptomyces sp., Streptomyces misionensis and Gordonia sp. These non-mycobacteria isolates showed negative results when tested directly with Xpert. In conclusion, Mtb is the predominant species of MTBC circulating in Sabah. The presence of non-mycobacteria in this study was due to bacterial contamination in MGIT, not bacterial cross-reactivity in Xpert, implying the high sensitivity and specificity of Xpert for diagnosis of TB. [ABSTRACT FROM AUTHOR]

Recent advances in the field of canine neuro-cognition allow for the non-invasive research of brain mechanisms in family dogs. Considering the striking similarities between dog's and human (infant)'s socio-cognition at the behavioural level, both similarities and differences in neural background can be of particular relevance. The current study investigates brain responses of n = 17 family dogs to human and conspecific emotional vocalizations using a fully non-invasive event-related potential (ERP) paradigm. We found that similarly to humans, dogs show a differential ERP response depending on the species of the caller, demonstrated by a more positive ERP response to human vocalizations compared to dog vocalizations in a time window between 250 and 650 ms after stimulus onset. A later time window between 800 and 900 ms also revealed a valence-sensitive ERP response in interaction with the species of the caller. Our results are, to our knowledge, the first ERP evidence to show the species sensitivity of vocal neural processing in dogs along with indications of valence sensitive processes in later post-stimulus time periods.

Conservation practitioners require cost-effective and repeatable remotely sensed data for assistive monitoring. This paper tests the ability of standard remotely piloted aircraft (DJI Phantom 4 Pro) imagery to discriminate between plant species in a rangeland environment. Flights were performed over two 0.3–0.4 ha exclusion plot sites, established as controls to protect vegetation from translocated animal disturbance on Dirk Hartog Island, Western Australia. Comparisons of discriminatory variables, classification potential, and optimal flight height were made between plot sites with different plant species diversity. We found reflectance bands and height variables to have high differentiation potential, whilst measures of texture were less useful for multisegmented plant canopies. Discrimination between species varied with omission errors ranging from 13 to 93%. Purposely resampling c. 5 mm imagery as captured at 20–25 m above terrain identified that a flight height of 120 m would improve capture efficiency in future surveys without hindering accuracy. Overall accuracy at a site with low species diversity (n = 4) was 70%, which is an encouraging result given the imagery is limited to visible spectral bands. With higher species diversity (n = 10), the accuracy reduced to 53%, although it is expected to improve with additional bands or grouping like species. Findings suggest that in rangeland environments with low species diversity, monitoring using a standard RPA is viable. [ABSTRACT FROM AUTHOR]

In this study, a Liquid Chromatography-Mass Spectrometry (LC-MS) method for the identification of clinically relevant Mycobacteroides abscessus (Mabs) complex organisms is tested using a set of microbial Type strains. This methodology is based on profiling proteins derived from Mycobacteroides abscessus complex isolates. These protein profiles are then used as markers of species differentiation. To test the resolving power, speed, and accuracy of this assay four ATCC type strains and 32 recent clinical isolates of closely related Mabs species collected at ARUP laboratories (10 clinical isolate strains of M. abscessus subsp. abscessus , 10 M. abscessus subsp. massiliense , 2 M. abscessus subsp. bolletii and 10 M. chelonae) were subjected to this approach. Using multiple deconvolution algorithms, we identified hundreds of individual proteins, with subpopulations of these used as species-specific markers. This assay identified 150, 130, 140 and 110 proteoforms with isocratic elution and 230, 180, 200 and 190 proteoforms with gradient elution for M. abscessus (ATCC 19977), M. massiliense (DSM 45103), M. bolletii (DSM 45149) and M. chelonae (ATCC 35752) respectively. Taxonomic species were identified correctly down to the species level with 100% accuracy. The ability to differentiate Mycobacteroides abscessus complex at sub-species level can in-turn be helpful for patient management. Data analysis showed ~7-17 proteoforms potentially able to differentiate between subspecies. Here, we present a proof-of-principle study employing a rapid mass spectrometry-based method to identify the clinically most common species within the Mabs species complex. [ABSTRACT FROM AUTHOR]

Societal Impact Statement: The largest populations of veteran oak trees in Europe are found in British parklands: managed wood pastures up to 1000 years old. Here, we present genomic evidence that parkland oak populations harbour considerable diversity and grew from local seed sources. We found some evidence for natural regeneration of offspring and for hybridization between pedunculate and sessile oak. We detected signatures of past gene flow between these two species and few regions of high differentiation within their genomes. Future expansion of this dataset may allow us to test for a genomic basis of acute oak decline, a syndrome of particular concern in parkland environments. Summary: The two predominant oak species in Europe, Quercus robur (English or pedunculate oak) and Quercus petraea (sessile oak), have a long history of human intervention. In Britain, a common management regime is parklands, often surrounding country houses. Little is known about how seeds were sourced for parkland oak populations nor the genetic diversity that they contain.We sequenced the whole genomes of 386 trees from four British parkland sites to characterize the nuclear and chloroplast genetic structure and diversity of oak parkland populations. We assembled the chloroplast genomes and matched these to restriction enzyme fragment chloroplast haplotypes found in previous studies of ancient woodlands.We found over two million high‐quality nuclear single‐nucleotide polymorphisms (SNPs), allowing us to identify 360 Q. robur, 10 Q. petraea and 16 hybrid individuals with confidence. We identified 81 coding regions exhibiting strong differentiation between the two species. We found evidence for selective sweeps in Q. robur near some regions containing genes with putative involvement in stress tolerance.We detected a few very close relatives within some sites, suggesting natural regeneration or local seed planting. There was little differentiation among the Q. robur populations at the four sites. Chloroplast genomes found in each parkland tended to be similar to those of local ancient woodlands, suggesting that they were derived from local seed sources. [ABSTRACT FROM AUTHOR]

The Cyclophyllidea comprises the most species-rich order of tapeworms (Platyhelminthes, Cestoda) and includes species with some of the most severe health impact on wildlife, livestock, and humans. We collected seven Cyclophyllidea specimens from rodents in Qinghai-Tibet Plateau (QTP) and its surrounding mountain systems, of which four specimens in QTP were unsequenced, representing "putative new species." Their complete mitochondrial (mt) genomes were sequenced and annotated. Phylogenetic reconstruction of partial 28S rDNA, cox 1 and nad 1 datasets provided high bootstrap frequency support for the categorization of three "putative new species," assigning each, respectively, to the genera Mesocestoides , Paranoplocephala , and Mosgovoyia , and revealing that some species and families in these three datasets, which contain 291 species from nine families, may require taxonomic revision. The partial 18S rDNA phylogeny of 29 species from Taeniidae provided high bootstrap frequency support for the categorization of the "putative new species" in the genus Hydatigera. Combined with the current investigation, the other three known Taeniidae species found in this study were Taenia caixuepengi , T. crassiceps , and Versteria mustelae and may be widely distributed in western China. Estimates of divergence time based on cox 1 + nad 1 fragment and mt protein-coding genes (PCGs) showed that the differentiation rate of Cyclophyllidea species was strongly associated with the rate of change in the biogeographic scenarios, likely caused by the uplift of the QTP; i.e., species differentiation of Cyclophyllidea might be driven by host-parasite co-evolution caused by the uplift of QTP. We propose an "out of QTP" hypothesis for the radiation of these cyclophyllidean tapeworms. [ABSTRACT FROM AUTHOR]

Because of the need for identification of forest species, especially for detection of illegal wood trade, the objective of this study was to evaluate the potential of colorimetry for differentiation of Inga vera Willd., Muellera campestris (Mart. ex Benth.) M.J. Silva & A.M.G. Azevedo and Machaerium paraguariense Hassl., species of the Fabaceae family, native to the Araucaria Forest in the state of Santa Catarina, southern Brazil. Discs at breast height were collected from three trees of each species and the colorimetric parameters (L*, a*, b*, C* and h) and visible spectra were evaluated in different radial position of the trunk (near bark, intermediate and near pith) and three different anatomical sections (transversal, radial and tangential surfaces). Mean values of hue angle (h) among the colorimetric parameters resulted in the highest potential for species discrimination. With respect to radial trunk position and anatomical section, parameters a* (green-red) and h were not statistically different, independent of the wood samples evaluated. For other parameters (L*, b* and C*), each species presented distinct results. Principal component analysis with second derivative of visible spectra discriminated all species. Colorimetry associated with chemometrics allowed to distinguish I. vera, M. campestris and M. paraguariense. [ABSTRACT FROM AUTHOR]

Abstract Background Birds of the family Laridae have not been intensively examined for infections with Sarcocystis spp. To date, sarcocysts of two species, S. lari and S. wobeseri, have been identified in the muscles of gulls. The aim of the present study was to evaluate the species richness of Sarcocystis in the herring gull, Larus argentatus, from Lithuania. Methods In the period between 2013 and 2019, leg muscles of 35 herring gulls were examined for sarcocysts of Sarcocystis spp. Sarcocystis spp. were characterised morphologically based on a light microscopy study. Four sarcocysts isolated from the muscles of each infected bird were subjected to further molecular examination. Sarcocystis species were identified by means of ITS1 sequence analysis. Results Sarcocysts were detected in 9/35 herring gulls (25.7%). Using light microscopy, one morphological type of sarcocysts was observed. Sarcocysts were microscopic, thread-like, had a smooth and thin (about 1 µm) cyst wall and were filled with banana-shaped bradyzoites. On the basis of ITS1 sequences, four Sarcocystis species, S. columbae, S. halieti, S. lari and S. wobeseri, were identified. Furthermore, it was demonstrated that a single infected herring gull could host two Sarcocystis species indistinguishable under light microscopy. Conclusions Larus argentatus is the first bird species found to act as intermediate host of four Sarcocystis spp. According to current knowledge, five species, S. falcatula, S. calchasi, S. wobeseri, S. columbae and S. halieti can use birds belonging to different orders as intermediate hosts.

In this study, a Liquid Chromatography-Mass Spectrometry (LC-MS) method for the identification of clinically relevant Mycobacteroides abscessus (Mabs) complex organisms is tested using a set of microbial Type strains. This methodology is based on profiling proteins derived from Mycobacteroides abscessus complex isolates. These protein profiles are then used as markers of species differentiation. To test the resolving power, speed, and accuracy of this assay four ATCC type strains and 32 recent clinical isolates of closely related Mabs species collected at ARUP laboratories (10 clinical isolate strains of M. abscessus subsp. abscessus, 10 M. abscessus subsp. massiliense, 2 M. abscessus subsp. bolletii and 10 M. chelonae) were subjected to this approach. Using multiple deconvolution algorithms, we identified hundreds of individual proteins, with subpopulations of these used as species-specific markers. This assay identified 150, 130, 140 and 110 proteoforms with isocratic elution and 230, 180, 200 and 190 proteoforms with gradient elution for M. abscessus (ATCC 19977), M. massiliense (DSM 45103), M. bolletii (DSM 45149) and M. chelonae (ATCC 35752) respectively. Taxonomic species were identified correctly down to the species level with 100% accuracy. The ability to differentiate Mycobacteroides abscessus complex at sub-species level can in-turn be helpful for patient management. Data analysis showed ~7-17 proteoforms potentially able to differentiate between subspecies. Here, we present a proof-of-principle study employing a rapid mass spectrometry-based method to identify the clinically most common species within the Mabs species complex.

The Cyclophyllidea comprises the most species-rich order of tapeworms (Platyhelminthes, Cestoda) and includes species with some of the most severe health impact on wildlife, livestock, and humans. We collected seven Cyclophyllidea specimens from rodents in Qinghai-Tibet Plateau (QTP) and its surrounding mountain systems, of which four specimens in QTP were unsequenced, representing “putative new species.” Their complete mitochondrial (mt) genomes were sequenced and annotated. Phylogenetic reconstruction of partial 28S rDNA, cox1 and nad1 datasets provided high bootstrap frequency support for the categorization of three “putative new species,” assigning each, respectively, to the genera Mesocestoides, Paranoplocephala, and Mosgovoyia, and revealing that some species and families in these three datasets, which contain 291 species from nine families, may require taxonomic revision. The partial 18S rDNA phylogeny of 29 species from Taeniidae provided high bootstrap frequency support for the categorization of the “putative new species” in the genus Hydatigera. Combined with the current investigation, the other three known Taeniidae species found in this study were Taenia caixuepengi, T. crassiceps, and Versteria mustelae and may be widely distributed in western China. Estimates of divergence time based on cox1 + nad1 fragment and mt protein-coding genes (PCGs) showed that the differentiation rate of Cyclophyllidea species was strongly associated with the rate of change in the biogeographic scenarios, likely caused by the uplift of the QTP; i.e., species differentiation of Cyclophyllidea might be driven by host-parasite co-evolution caused by the uplift of QTP. We propose an “out of QTP” hypothesis for the radiation of these cyclophyllidean tapeworms.

Quercus robur and Q. petraea are, in addition to Fagus sylvatica, the main economically used deciduous tree species in Europe. Identification of these two species is crucial because they differ in their ecological demands. Because of a changing climate, foresters must know more than ever which species will perform better under given environmental conditions. The search for differentiating molecular markers between these two species has already lasted for decades. Until now, differentiation has only been possible in approaches with a combination of several molecular markers and a subsequent statistical analysis to calculate the probability of being one or the other species. Here, we used MiSeq Illumina data from pools of Q. robur and Q. petraea specimens and identified nuclear SNPs and small InDels versus the Q. robur reference genome. Selected sequence variants with 100% allele frequency difference between the two pools were further validated in an extended set of Q. robur and Q. petraea specimens, and then the number of markers was deliberately reduced to the smallest possible set for species differentiation. A combination of six markers from four nuclear regions is enough to identify Q. robur, Q. petraea or hybrids between these two species quite well and represents a marker set that is cost-efficient and useable in every laboratory.

Introduction: Baishouwu, derived from Cynanchum auriculatum (CA) Royle ex Wight, Cynanchum bungei (CB) Decne., and Cynanchum wilfordii (CW) (Maxim.) Hemsl., is a valuable traditional Chinese medicine. CA is also recognized as a new food resource by China's National Health Commission. Given the considerable variations in flavor and chemical composition among these species and lack of their qualitative assessments, accurately differentiating between the species constituting Baishouwu is essential., Objective: To develop a method combining electronic tongue (E-tongue), electronic nose (E-nose), and ultra-performance liquid chromatography-quadrupole-time of flight/mass spectrometry (UPLC-Q-TOF/MS) to differentiate between Baishouwu samples., Material and Methods: Fifteen batches of Baishouwu samples were analyzed using E-tongue, E-nose, and UPLC-Q-TOF/MS. Flavor differences and key differential metabolites were determined through principal component analysis and orthogonal partial least squares discriminant analysis., Results: E-tongue results revealed umami, sweetness, and richness as the predominant flavors of Baishouwu, with CA having the highest umami response, CW exhibiting the highest bitterness, and CB the highest sweetness. E-nose sensors showed consistent responses across species, with variations in signal strength; W1W and W2W sensors showed the highest response values. A total of 158 and 41 characteristic variables in the positive and negative ion modes, respectively, were selected as candidate differential metabolites, of which 29 and 14 were confirmed through database comparison. Eight critical differential metabolites, including C 21 steroids and acetophenone compounds, were identified., Conclusion: This study presents a strategy for differentiating among the species constituting Baishouwu, providing a basis for broader application and establishing quality standards for these medicinal compounds., (© 2024 John Wiley & Sons Ltd.)

Because of the need for identification of forest species, especially for detection of illegal wood trade, the objective of this study was to evaluate the potential of colorimetry for differentiation of Inga vera Willd., Muellera campestris (Mart. ex Benth.) M.J. Silva & A.M.G. Azevedo and Machaerium paraguariense Hassl., species of the Fabaceae family, native to the Araucaria Forest in the state of Santa Catarina, southern Brazil. Discs at breast height were collected from three trees of each species and the colorimetric parameters (L*, a*, b*, C* and h) and visible spectra were evaluated in different radial position of the trunk (near bark, intermediate and near pith) and three different anatomical sections (transversal, radial and tangential surfaces). Mean values of hue angle (h) among the colorimetric parameters resulted in the highest potential for species discrimination. With respect to radial trunk position and anatomical section, parameters a* (green-red) and h were not statistically different, independent of the wood samples evaluated. For other parameters (L*, b* and C*), each species presented distinct results. Principal component analysis with second derivative of visible spectra discriminated all species. Colorimetry associated with chemometrics allowed to distinguish I. vera, M. campestris and M. paraguariense.

Polish wheat (Triticum polonicum) is a unique tetraploid wheat species characterized by an elongated outer glume. The genetic control of the long-glume trait by a single semi-dominant locus, P1 (from P olish wheat), was established more than 100 years ago, but the underlying causal gene and molecular nature remain elusive. Here, we report the isolation of VRT-A2 , encoding an SVP-clade MADS-box transcription factor, as the P1 candidate gene. Genetic evidence suggests that in T. polonicum , a naturally occurring sequence rearrangement in the intron-1 region of VRT-A2 leads to ectopic expression of VRT-A2 in floral organs where the long-glume phenotype appears. Interestingly, we found that the intron-1 region is a key ON/OFF molecular switch for VRT-A2 expression, not only because it recruits transcriptional repressors, but also because it confers intron-mediated transcriptional enhancement. Genotypic analyses using wheat accessions indicated that the P1 locus is likely derived from a single natural mutation in tetraploid wheat, which was subsequently inherited by hexaploid T. petropavlovskyi. Taken together, our findings highlight the promoter-proximal intron variation as a molecular basis for phenotypic differentiation, and thus species formation in Triticum plants. A naturally occurring sequence rearrangement in the intron-1 region of the MADS-box gene VRT-A2 , featuring a 560-bp deletion coupled with a 157-bp sequence substitution, leads to ectopic expression of VRT-A2 in floral organs and underlies the origin of Polish wheat (Triticum polonicum) and 'Daosuimai' (T. petropavlovskyi), species with elongated outer glumes and grains. [ABSTRACT FROM AUTHOR]

The genus Bifidobacterium are extensively used as probiotics in food applications, for their potential role to combat different lifestyle diseases. This has necessitated a great importance for their species, sub-species and even at the strain level characterization. In the present study, attempts have been made to target repetitive DNA element-based BOX-PCR fingerprinting to judge its potential in taxonomic discrimination of Bifidobacterium species. The BOXA1R primer-based repetitive PCR amplified products were analysed for 93 identified bifidobacterial isolates collected from diverse sources of human and animal origin along with 12 DSMZ procured standard reference strains. Dendrograms constructed from the fingerprint patterns of BOX-PCR differentiated all the isolated strains into 10 different groups, grouped with one standard reference isolates and successfully discriminated all isolates up to subspecies level as identified. The BOX-PCR method used in this study effectively resolved the taxonomic status and differentiated all 93 bifidobacterial species isolated from diverse faecal origins of human and animal samples. [ABSTRACT FROM AUTHOR]

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Golden jackal (Canis aureus) monitoring in central Europe generates more interest and becomes increasingly important with the species' appearance in areas where it was previously unestablished. For genetic monitoring of golden jackals via scat collection, the distinction of jackal scats from those of related species such as the red fox (Vulpes vulpes) is crucial: if done incorrectly, it can falsify diet studies or inflate costs of DNA analyses. In this study, we tested the potential benefits of using domestic dogs to specifically find jackal scats. We used trained scat detection dogs to locate and identify golden jackal scats in an area of dense shrubland, with the species' presence previously confirmed via bioacoustic monitoring. On a total of 133 km of transects covering at least two golden jackal groups, two human-dog teams found 34 putative golden jackal scats. A total of 26 of these were successfully genetically analysed, of which 19 were attributed to 13 individual golden jackals, an accuracy rate of 73%. Our results show that detection dogs can successfully differentiate golden jackal scats from other species. This tool can be applied to detect golden jackal presence and establish more reliable estimates of group number and size than previously determined through bioacoustic stimulation. By combining both methods, questions about family structures and kinship, seasonal differences in habitat use and territory sizes can be answered. The regular use of detection dogs can present an efficient method to monitor golden jackals on a long-term basis and to learn more about their behaviour and population dynamics. [ABSTRACT FROM AUTHOR]

Mouse lemurs are small, nocturnal, arboreal solitary foragers and are endemic primates of Madagascar. This lifestyle and their high predation risk can explain why mouse lemurs rely heavily on olfaction for intraspecific communication. As they often use urine for this purpose, we investigated dichloromethane extracts of the urine of two mouse lemur species, the gray mouse lemur (Microcebus murinus) and the Godman’s mouse lemur (M. lehilahytsara), using gas-chromatography-mass spectrometry. We detected 977 different volatile compounds of different compound classes in 22 urine extracts obtained from nine M. murinus (four males, five females) and nine M. lehilahytsara (three males, six females) individuals. We compared the volatile profiles of the sexes and species using principal component analyses and discriminant function analyses and detected a significant difference in the urinary profiles of males and females and in the profiles of M. murinus and M. lehilahytsara. These very complex sex- and species-specific signatures could be used for distance communication in the context of species recognition, for mate search and in male-male competition. Our study provides important mechanistic insights into complex chemical signaling pathways in primates that are mirrored, in the case of mouse lemurs, by their extraordinarily rich repertoire of olfactory receptors. The production of highly informative olfactory signals may be complementing the complex acoustic signaling system of these solitary foragers suggesting the existence of a multimodal communication network that should be highly beneficial for any species living in dispersed social networks.

Conservation practitioners require cost-effective and repeatable remotely sensed data for assistive monitoring. This paper tests the ability of standard remotely piloted aircraft (DJI Phantom 4 Pro) imagery to discriminate between plant species in a rangeland environment. Flights were performed over two 0.3–0.4 ha exclusion plot sites, established as controls to protect vegetation from translocated animal disturbance on Dirk Hartog Island, Western Australia. Comparisons of discriminatory variables, classification potential, and optimal flight height were made between plot sites with different plant species diversity. We found reflectance bands and height variables to have high differentiation potential, whilst measures of texture were less useful for multisegmented plant canopies. Discrimination between species varied with omission errors ranging from 13 to 93%. Purposely resampling c. 5 mm imagery as captured at 20–25 m above terrain identified that a flight height of 120 m would improve capture efficiency in future surveys without hindering accuracy. Overall accuracy at a site with low species diversity (n = 4) was 70%, which is an encouraging result given the imagery is limited to visible spectral bands. With higher species diversity (n = 10), the accuracy reduced to 53%, although it is expected to improve with additional bands or grouping like species. Findings suggest that in rangeland environments with low species diversity, monitoring using a standard RPA is viable.

Keywords: mass spectrometry; microbial identification; antimicrobial susceptibility testing; species differentiation; database EN mass spectrometry microbial identification antimicrobial susceptibility testing species differentiation database 1 3 3 01/21/22 20220114 NES 220114 The rapid identification of microbial pathogens is essential for the diagnosis and treatment of infectious diseases and the development of targeted prevention and treatment measures. The potential utility of mass spectrometry (MS)-based techniques, including matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) MS and liquid chromatography-tandem MS (LC-MS/MS), has been widely explored ([3]; [5]; [4]; [2]; [1]). In the Research Topic of "Progress in Pathogen Identification Based on Mass Spectrometry", we covered the latest progresses of MS technologies in the field of pathogen biology. [Extracted from the article]

Bromuconazole is a potent triazole fungicide and consists of two pairs of enantiomers [trans(2R, 4R)-, trans(2S, 4S)-configurations and cis(2R, 4S), cis(2S, 4R)-configurations]. The degradation of the enantiomers of (2RS, 4RS)- and (2RS, 4SR)-bromuconazole by phase I metabolism was investigated using rat, mouse, rabbit, dog and human liver microsomes. Bromuconazole isomers were quantified using HPLC-MS/MS (ESI+) after the separation on a combination of a reversed phase and a chiral analytical column. Moreover, the absolute configuration of four enantiomers had been determined based on the comparisons of the vibrational circular dichroism experimental spectra with the theoretical curve obtained by density functional theory calculations. The degradation of all four isomers followed first-order kinetics and the (2R, 4S)-bromuconazole displayed a significantly longer half-life during microsomal incubation than that of other antipodes. Moreover the metabolic rates of four isomers in human and mouse were much slower than those in rat, rabbit and dog, indicating species-specific differences in the metabolism of bromuconazole. The Vmax values for (2S, 4R)-bromuconazole were obviously higher than those of its antipode in all liver microsomes studied. The Vmax values for (2R, 4R)-bromuconazole were significantly higher than those for (2S, 4S)-bromuconazole in all liver microsomes studied except human. [ABSTRACT FROM AUTHOR]

Wheat and its relatives include some allopolyploid species such as Aegilops juvenalis (Thell.) Eig (DDMMUU) and Aegilops vavilovii (Zhuk.) Chenn. (DDMMSS). Here, we successfully produced for the first time three allodecaploid lines with the AABBDDMMUU and AABBDDMMSS genomes through interspecific crosses between a tetraploid wheat cultivar and the two Aegilops species. Spike architecture of the synthetic lines showing a brittle rachis phenotype strongly resembled that of the parental hexaploid Aegilops species, but not that of the parental tetraploid wheat. Phenotypic differences of the spike and spikelet morphology were caused by one of the parental Aegilops species. Glumes of the synthetic decaploids were extremely hard, and all three synthetic lines had a soft texture with a smooth starch surface in endosperm cells. The soft-textured grains of the synthetic decaploids were due to accumulation of the puroindoline proteins derived from the genomes of parental allohexaploid Aegilops species. Therefore, the nascent synthetic decaploid lines highly reflect the phenotypic characteristics of the pollen parents. With further wheat breeding, the synthetic decaploids could have great potential to improve various traits. [ABSTRACT FROM AUTHOR]

The genus Pelophylax has been considered a model organism for understanding hybridization. Despite being the most diverse within the Western Palearctic group of Pelophylax , the ridibundus / bedriagae lineage that includes six species, remains largely understudied, revealing many knowledge gaps in regards to their evolution and conservation. Using genetic data from populations among species inhabiting contact zones could prove vital in filling these gaps. We tested 17 microsatellite markers for cross-species amplification in mainland Pelophylax species distributed in southern Balkans and evaluated their power to successfully detect population/species structure. Importantly, we examined their potential for identifying hybrids and backcrosses between known hybridized species. We detected 12 highly polymorphic loci that cross-amplified all species that showed no significant Linkage Disequilibrium and were able to discriminate among species and between parental and hybrids. We suggest their future use in genetic studies for the genus Pelophylax in Greece, including the identification of contact zones. [ABSTRACT FROM AUTHOR]

The murid rodent Praomys daltoni is widespread in Sudanian savanna and woodlands of West Africa, and previous study of mitochondrial DNA variability suggested that it encompasses the phenotypically (small, grey-bellied) and ecologically (commensal) distinct form, Praomys derooi. Here, we comprehensively examined the genetic and morphological diversity within the complex. Six mitochondrial lineages showed a fine-scale phylogeographical pattern, whereas delimitation based on nuclear loci pooled four of them into a single widespread unit. A newly discovered lineage from southern Mauritania stands apart from the rest of the complex and might represent an unrecognized species. At the same time, the internal position of P. derooi (C2 mitochondrial lineage) was confirmed by the multilocus analysis. The magnitude of genetic distances between major phylogeographical lineages was typical for interspecific divergence in other clades of Praomys , despite the little differences among them in morphology (skull and upper molar row shapes). The most pronounced morphological shift was associated with a transition to commensalism, especially in P. derooi , but also in other lineages. This makes the whole complex a suitable model for the study of phenotypic novelty, the evolution of commensalism and conditions for ecological speciation. [ABSTRACT FROM AUTHOR]

Background: Birds of the family Laridae have not been intensively examined for infections with Sarcocystis spp. To date, sarcocysts of two species, S. lari and S. wobeseri, have been identified in the muscles of gulls. The aim of the present study was to evaluate the species richness of Sarcocystis in the herring gull, Larus argentatus, from Lithuania. Methods: In the period between 2013 and 2019, leg muscles of 35 herring gulls were examined for sarcocysts of Sarcocystis spp. Sarcocystis spp. were characterised morphologically based on a light microscopy study. Four sarcocysts isolated from the muscles of each infected bird were subjected to further molecular examination. Sarcocystis species were identified by means of ITS1 sequence analysis. Results: Sarcocysts were detected in 9/35 herring gulls (25.7%). Using light microscopy, one morphological type of sarcocysts was observed. Sarcocysts were microscopic, thread-like, had a smooth and thin (about 1 µm) cyst wall and were filled with banana-shaped bradyzoites. On the basis of ITS1 sequences, four Sarcocystis species, S. columbae, S. halieti, S. lari and S. wobeseri, were identified. Furthermore, it was demonstrated that a single infected herring gull could host two Sarcocystis species indistinguishable under light microscopy. Conclusions: Larus argentatus is the first bird species found to act as intermediate host of four Sarcocystis spp. According to current knowledge, five species, S. falcatula, S. calchasi, S. wobeseri, S. columbae and S. halieti can use birds belonging to different orders as intermediate hosts. [ABSTRACT FROM AUTHOR]

Inferring species boundaries or speciation events is not straightforward as these processes are often fuzzy and difficult to identify. This may be simplified by the use of integrative approaches that combine molecular and biochemical techniques. Here, we examined four stoneflies species differentiation using a combination of genetic signals involving mitochondrial genetic markers (cytochrome oxidase, cox1, and 12S) and biochemical signals involving cuticular hydrocarbons. A combination of both the techniques revealed strong interactions among Anacroneuria species and potential recent speciation events refuting species hypothesis from three out of four species despite consistent morphological differences, which enhance our understanding of species divergence in Anacroneuria species. Our results may serve as a basis for further studies assessing species boundaries and evolutionary relationships among other insect species for biodiversity implications on river management. [ABSTRACT FROM AUTHOR]

• PCA of FTIR spectra successfully used to group historic cloths into types for the first time. • HCA dendrogram presented to show the relationship between cloths. • Analytical method proposed to aid conservators and art historians with barkcloth differentiation. • Analysis of contemporary cloths highlights challenges in creating reconstructions of historic cloths. Barkcloths, non-woven textiles originating from the Pacific Islands, form part of many museum collections and date back to the 18th and 19th centuries. The ability to determine different plant species which have been used for producing barkcloth is required by art historians to help understand the origin and use of the cloths and by conservators for whom the species type may have an impact on textile durability, deterioration and hence conservation. However, to date the development of a non-destructive, robust analytical technique has been elusive. This article describes the use of Fourier transform infrared spectroscopy with attenuated total reflection (ATR-FTIR) and principal component analysis (PCA) todifferentiation between historic barkcloths. Three distinct groups of historic cloths were identified using PCA of the FTIR region between 1200 and 1600 cm−1 where molecular vibrations associated with tannins and lignins are dominant. Analysis of contemporary cloths only identified Pipturus albidus cloth as different and highlighted the difficulties around producing a representative textile sample to mimic the historic cloths. While the methodology does not itself identify species, the use of historically well-provenanced samples allows cloths showing similarities to group together and is a significant aid to identification. [ABSTRACT FROM AUTHOR]

• Efficiency of Cytochrome Oxidase I to validate the identification of sympatric species. • The ontogeny of secondary sexual characters was used to identify juveniles of Farfantepenaeus. • Contributions of the precise identification of juvenile prawns for the preservation of their fish stocks. Most identification keys of species of Farfantepenaeus use the shape of secondary sexual characters as a dichotomic character, but this approach focus only on adults. The lack of similar diagnostic tools for juveniles, which are commonly found in sympatry in estuaries, hinders the identification of the species Farfantepenaeus subtilis and Farfantepenaeus brasiliensis. To fill this gap, here we described the morphology of their secondary sexual characters along ontogeny and confirmed the efficiency of these characters using molecular tools. Moreover, based on morphological analyses of the thelycum and petasma we propose an additional morphological maturity stage, and report the occurrence of positive allometry in both sexes. These results may serve as a baseline for future improvements of the management practices of stocks of these shrimps, and future studies on the systematic, reproductive biology and development of penaeid shrimps. [ABSTRACT FROM AUTHOR]

The European corn borer, Ostrinia nubilalis (Lepidoptera: Crambidae), is a perennial insect pest of cultivated maize that was inadvertently introduced into North America in the early 1900s, but population densities have decreased since the widespread adoption of transgenic hybrids that express Bacillus thuringiensis (Bt) toxins. The native American lotus borer, Ostrinia penitalis (Lepidoptera: Crambidae), is among the most ancestral species described in the genus Ostrinia , and has a geographic range that coincides with that of O. nubilalis across major maize growing regions of North America. Due to the recent decrease in O. nubilalis populations, O. penitalis has become more pronounced in light trap samples intended to monitor O. nubilalis. A molecular tool based on variation in restriction endonuclease digestion pattern of a polymerase chain reaction amplified fragment of the mitochondrial cytochrome c oxidase subunit I (cox I) gene was developed and validated to differentiate these two species. This method was applied to light trap samples over a 2-yr period and achieved accurate quantification of species, and shows that O. penitalis can be prevalent in O. nubilalis first flight sampling. These methods are useful for contemporary O. nubilalis field research in North America. [ABSTRACT FROM AUTHOR]

Corylus colurna is considered as important tree species under climate change for dry and warm conditions in Central Europe and was overused because of its valuable wood. Therefore Turkish hazel is now present only in small isolated populations and is protected under IUCN. Genetic conservation of this tree species plays a key role in future sustainable forest development. Turkish hazel co-occurs with Common hazel (C. avellana) in its whole distribution area and may form hybrids. To differentiate between the pure species and their hybrids, cross-species amplifying markers are required. In this study we have evaluated existing simple sequence repeat (SSR) markers using altogether 128 samples of C. avellana and C. colurna. Fifteen nuclear SSRs have generated easy to-score alleles in the two species and 13 of them were highly polymorphic. For all 15 markers the mean allele number, average observed heterozygosity, genetic diversity and polymorphism information index were high. The two most polymorphic SSRs were L1.10 and CaT-B501 with 19 and 16 alleles, respectively. Structure analysis proved the differentiation of the two species C. avellana and C. colurna. No hybridization was detected in the analysed populations. Results also indicated that C. colurna from Balkan Peninsula and Asia Minor belong to separate groups. Our study presents highly polymorphic, easy to score, ready to use SSR-multiplexes, which can be applied in population genetics and gene conservation studies. [ABSTRACT FROM AUTHOR]

In an effort to improve surveillance capacity for the exotic red imported fire ant, Solenopsis invicta, a lateral flow immunoassay (LFA) was recently evaluated by Biosecurity Queensland staff in Australia. The purpose of the research was to assess the ability of the fire ant LFA to discriminate S. invicta from ants found in Australia and to conduct the first field evaluation of the test. In addition to S. invicta, 36 species of ants, collected mainly from Queensland, were evaluated by the LFA, including species from the Dolichoderinae (n = 7), Formicinae (n = 13), Myrmeciinae (n = 1), Myrmicinae (n = 11), Ponerinae (n = 3) and Pseudomyrmicinae (n = 1) subfamilies. The fire ant LFA test correctly identified S. invicta in every instance. No cross reactivity was observed in the other ant species. Field tests by staff previously unfamiliar with the test resulted in suggestions for improving ant collection and manipulation. The fire ant LFA appears to be suitable for use in Australia for rapid confirmation of potential new detections of S. invicta. [ABSTRACT FROM AUTHOR]

Alicyclobacillus acidoterrestris is considered to be one of the most important target microorganisms in quality control of heat-processed acidic foods. This species can cause spoilage by forming spores with very high heat resistance; however, no gas production or visible changes occur in the contaminated product during storage. Thus, the differentiation of A. acidoterrestris from other Alicyclobacillus species is of great importance. Τhe present study aims to find a rapid method for the identification of A. acidoterrestris. To achieve this, 78 Alicyclobacillus isolates were subjected to PCR-RFLP (restriction fragment length polymorphism). Specifically, PCR products of amplified V1-V3 region of the 16S rRNA gene were digested with restriction endonuclease HhaI. According to the obtained results, all A. acidoterrestris isolates showed similar restriction fragments of the 16S rRNA gene and different from A. acidocaldarius and A. hesperidum. In conclusion, a single enzyme PCR-RFLP assay was developed and showed rapid, inexpensive and direct identification of Alicyclobacillus isolates. The application of this method will be useful to identify this contaminant in fruit juices. [ABSTRACT FROM AUTHOR]