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Prioritising biodiversity conservation requires knowledge of where biodiversity occurs. Such knowledge, however, is often lacking. New technologies for collecting biological and physical data coupled with advances in modelling techniques could help address these gaps and facilitate improved management outcomes. Here we examined the utility of environmental data, obtained using different methods, for developing models of both uni- and multivariate biodiversity metrics. We tested which biodiversity metrics could be predicted best and evaluated the performance of predictor variables generated from three types of habitat data: acoustic multibeam sonar imagery, predicted habitat classification, and direct observer habitat classification. We used boosted regression trees (BRT) to model metrics of fish species richness, abundance and biomass, and multivariate regression trees (MRT) to model biomass and abundance of fish functional groups. We compared model performance using different sets of predictors and estimated the relative influence of individual predictors. Models of total species richness and total abundance performed best; those developed for endemic species performed worst. Abundance models performed substantially better than corresponding biomass models. In general, BRT and MRTs developed using predicted habitat classifications performed less well than those using multibeam data. The most influential individual predictor was the abiotic categorical variable from direct observer habitat classification and models that incorporated predictors from direct observer habitat classification consistently outperformed those that did not. Our results show that while remotely sensed data can offer considerable utility for predictive modelling, the addition of direct observer habitat classification data can substantially improve model performance. Thus it appears that there are aspects of marine habitats that are important for modelling metrics of fish biodiversity that are not fully captured by remotely sensed data. As such, the use of remotely sensed data to model biodiversity represents a compromise between model performance and data availability.
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4917103 | PMC |
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0155634 | PLOS |
Appl Microbiol Biotechnol
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School of Plant Sciences, The University of Arizona, 1140 E South Campus Drive, Forbes 303, Tucson, AZ, 85721, USA.
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September 2025
Fermentation and Microbial Biotechnology Division, CSIR-Indian Institute of Integrative Medicine, Canal Road, Jammu-Tawi, 180001, India.
Trichoderma species exhibit remarkable versatility in adaptability and in occupying habitats with lifestyles ranging from mycoparasitism and saprotrophy to endophytism. In this study, we present the first high-quality whole-genome assembly and annotation of T. lixii using Illumina HiSeq technology to explore the mechanisms of endophytic lifestyle and plant colonization.
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Clinical Microbiome Unit, Laboratory of Host Immunity and Microbiome, Division of Intramural Research, National Institute of Allergy and Infectious Disease, National Institute of Health, Bethesda, MD, USA.
Parity, the number of pregnancies carried beyond 20 weeks, influences the maternal gut microbiome. However, whether parity modulates the infant microbiome longitudinally remains underexplored. To address this, 746 infants in a longitudinal cohort study were assessed.
View Article and Find Full Text PDFZool Res
September 2025
College of Life Science and Technology, Jinan University, Guangzhou, Guangdong 510632, China. E-mail:
The big-headed turtle ( ), currently the only extant member of the genus and the family Platysternidae, has undergone severe population declines driven by poaching, illegal trade, and habitat loss, leading to its classification as Critically Endangered (CR) by the International Union for Conservation of Nature (IUCN). Despite its conservation status, persistent taxonomic ambiguities and unresolved phylogenetic relationships have hindered effective protection and management. This study integrated evidence from genome-wide single nucleotide polymorphisms (SNPs), mitochondrial DNA sequences ( , ), and morphological data to reconstruct the phylogeny and phylogeography of and revise its taxonomy.
View Article and Find Full Text PDFAPMIS
September 2025
The Regional Department of Clinical Microbiology, Zealand University Hospital-Koege, Køge, Denmark.
Sequencing of the 16S ribosomal RNA (rRNA) gene is an important tool in addition to conventional methods for the identification of bacterial pathogens in human infections. In polymicrobial samples, Sanger sequencing can produce uninterpretable chromatograms. This limitation can be overcome by Next Generation Sequencing (NGS) of the 16S rRNA gene.
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