BMC ecology and evolution最新文献

{"title":"The associations between floral traits and pollinator groups in two Mediterranean mountainous plant communities in the Middle Atlas of Morocco.","authors":"Aziz Ait Akka, Soufyane Lafraxo, Fatima Zahra Jawhari, Ahlam Sentil, Mohammed Bourhia, Youssouf Ali Younous, Abdel-Rhman Z Gaafar, Amina Bari, Raja Guemmouh","doi":"10.1186/s12862-025-02403-w","DOIUrl":"10.1186/s12862-025-02403-w","url":null,"abstract":"","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"93"},"PeriodicalIF":2.6,"publicationDate":"2025-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12418613/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145031478","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Widefield acoustics heuristic: advancing microphone array design for accurate spatial tracking of echolocating bats.","authors":"Ravi Umadi","doi":"10.1186/s12862-025-02441-4","DOIUrl":"10.1186/s12862-025-02441-4","url":null,"abstract":"<p><p>Accurate three-dimensional localisation of ultrasonic bat calls is essential for advancing behavioural and ecological research. I present a comprehensive, open-source simulation framework-Array WAH-for designing, evaluating, and optimising microphone arrays tailored to bioacoustic tracking. The tool incorporates biologically realistic signal generation, frequency-dependent propagation, and advanced Time Difference of Arrival (TDoA) localisation algorithms, enabling precise quantification of both positional and angular accuracy. The framework supports both frequency-modulated (FM) and constant-frequency (CF) call types, the latter characteristic of Hipposiderid and Rhinolophid bats, which are particularly prone to localisation errors due to their long-duration emissions. A key innovation is the integration of source motion modelling during call emission, which introduces Doppler-based time warping and phase shifts across microphones-an important and often overlooked source of error in source localisation. I systematically compare four array geometries-a planar square, a pyramid, a tetrahedron, and an octahedron-across a volumetric spatial grid. The tetrahedral and octahedral configurations demonstrate superior localisation robustness, while planar arrays exhibit limited angular resolution. My simulations reveal that spatial resolution is fundamentally constrained by array geometry and the signal structure, with typical localisation error ranging between 5-10 cm at 0.5 m arm lengths. By providing a flexible, extensible, and user-friendly simulation environment, Array WAH supports task-specific design and deployment of compact, field-deployable localisation systems. It is especially valuable for investigating the acoustic behaviour of free-flying bats under naturalistic conditions, and complements emerging low-power multichannel ultrasonic recorders for field deployment and method validation.</p>","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"92"},"PeriodicalIF":2.6,"publicationDate":"2025-09-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12418663/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145031455","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pervasive non-random mitochondrial DNA heteroplasmy in the hybrid water frog Pelophylax esculentus.","authors":"Jelena Radojicic, Jon Bent Kristoffersen, Eirini-Slavka Polovina, Pavlos Pavlidis, Emmanuel D Ladoukakis","doi":"10.1186/s12862-025-02436-1","DOIUrl":"10.1186/s12862-025-02436-1","url":null,"abstract":"<p><strong>Background: </strong>Heteroplasmy, the presence of more than one type of mitochondrial DNA (mtDNA) within an individual, is an exception to the maternal transmission of mtDNA and has been observed in several animal species. A central question is whether heteroplasmy among individuals and across generations is mainly influenced by genetic drift or by selection.</p><p><strong>Results: </strong>We quantified heteroplasmy in eight males, eight females and eight unfertilized eggs per female from a natural population of the hybrid frog species Pelophylax esculentus (between P. ridibundus and P. lessonae). After excluding sequencing error and potential sources of contamination, we found that all individuals and most of the eggs were heteroplasmic, containing 2-5 different haplotypes, from which one was very common and the rest appeared at very low frequencies (at maximum 2%). We observed a single lessonae haplotype, which was present in females and in their eggs but absent from all males. On the other hand, we observed four different ridibundus haplotypes that were present in males, females and eggs. Eggs had significantly lower heteroplasmy levels than their mothers.</p><p><strong>Conclusions: </strong>The distribution of haplotypes between males and females, the difference of heteroplasmy levels between mothers and their eggs, and results from simulations suggest that drift alone is not sufficient to explain the observed patterns of heteroplasmy.</p>","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"91"},"PeriodicalIF":2.6,"publicationDate":"2025-09-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12403311/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982433","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A harbor seal (Phoca vitulina) shows extensive respiratory control in sound production.","authors":"Diandra Duengen, Yannick Jadoul, Andrea Ravignani","doi":"10.1186/s12862-025-02404-9","DOIUrl":"10.1186/s12862-025-02404-9","url":null,"abstract":"","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"90"},"PeriodicalIF":2.6,"publicationDate":"2025-09-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12403956/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982372","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Volunteers' diverse and unexpected knowledge practices in contributory citizen science.","authors":"Debbie Gonzalez Canada, Stephanie Lavau, Kathryn J H Williams","doi":"10.1186/s12862-025-02415-6","DOIUrl":"https://doi.org/10.1186/s12862-025-02415-6","url":null,"abstract":"","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"87"},"PeriodicalIF":2.6,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12400645/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982429","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The role of Cacao agroforests in the genetic conservation of Cariniana legalis, an emblematic species of the atlantic forest.","authors":"A S Santos, J B Leal, R X Corrêa, K P Gramacho, F A Gaiotto","doi":"10.1186/s12862-025-02418-3","DOIUrl":"10.1186/s12862-025-02418-3","url":null,"abstract":"<p><p>Deforestation in the Atlantic Forest has reached critical levels, threatening multiple levels of biodiversity. In these deforested landscapes, conservation strategies could benefit from preserving agroforestry systems known as Cabruca, a traditional method of cultivating cocoa under a canopy of native trees. In this context, Cariniana legalis (Jequitibá-rosa), an endemic tree species of the Atlantic Forest listed as endangered, was selected to evaluate the role of cocoa agroforests (Cabrucas) and forest remnants in the genetic conservation of this species. The study assessed the genetic diversity, inbreeding levels, and genetic structure of five populations of C. legalis located in forest remnants protected by law and in Cabrucas in southern Bahia, Brazil. Using 11 microsatellite loci, 294 individuals were genotyped for adult and juvenile ontogenetic stages. Despite forest fragmentation, some populations, especially those located in Cabrucas, retained high levels of genetic diversity in both stages. In contrast, a protected area exhibited lower genetic diversity and elevated inbreeding levels (f > 0.43) in both adults and juveniles. Analyses of genetic differentiation (F_ST) and migration rate (Nm) indicated reduced historical gene flow in certain populations, while network analysis and Discriminant Analysis of Principal Components (DAPC) identified Cabrucas as central genetic hubs promoting connectivity across the landscape in both ontogenetic stages. Our results highlight the conservation value of cocoa agroforests for maintaining the genetic diversity and connectivity of this endangered tree species. We therefore recommend the inclusion of Cabrucas in integrated genetic conservation strategies for C. legalis in anthropogenically modified Atlantic Forest landscapes.</p>","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"89"},"PeriodicalIF":2.6,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12400646/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982350","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative genomics of two closely related Acropora coral species with different spawning seasons reveals genomic regions possibly associated with gametogenesis.","authors":"Shiho Takahashi-Kariyazono, Akira Iguchi, Yohey Terai","doi":"10.1186/s12862-025-02432-5","DOIUrl":"https://doi.org/10.1186/s12862-025-02432-5","url":null,"abstract":"<p><p>Marine invertebrates release their gametes at an optimal time to produce the next generation. In reef-building scleractinian corals, synchronous spawning is essential for reproductive success. Molecular mechanisms of scleractinian gametogenesis have been studied; however, the mechanism by which coral gametes mature at specific times has yet to be discovered. The present study focused on two Acropora species with different spawning seasons. In Okinawa, Japan, Acropora digitifera spawns from May to June, whereas Acropora sp. 1 spawns in August. Comparative genomic analyses revealed that 60 genes are located in the diverged genomic regions between the two species, suggesting a possible association with timing of gametogenesis. Among candidate genes, we identified an Acropora sp. 1-specific amino acid change in gene WDR59, one of the components of a mTORC1 activator, GATOR2. Since regulation of gametogenesis by mTORC1 is widely conserved among eukaryotes, the difference in timing of gamete maturation observed in the two Acropora species may be caused by a substitution in WDR59 that slightly affects timing of mTORC1 activation via GATOR2. In addition, this substitution may lead to reproductive isolation between the two species, due to different spawning periods. Thus, we propose that A. digitifera and Acropora sp. 1 species pair is an effective model for studying coral speciation and understanding the molecular mechanisms that control coral spawning timing.</p>","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"88"},"PeriodicalIF":2.6,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12400658/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982406","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Vulnerability analysis and sustainable rehabilitation strategies for mangrove ecosystems in Bedono coastal area, Central Java.","authors":"Fuad Muhammad, Marsum Marsum, Sapto Purnomo Putro, Mochammad Hadi, Murningsih Murningsih, Jafron Wasiq Hidayat, Waqor Ahmad, Puteri Inandin Nabiha, Slamet Wardoyo","doi":"10.1186/s12862-025-02406-7","DOIUrl":"https://doi.org/10.1186/s12862-025-02406-7","url":null,"abstract":"<p><p>Mangrove ecosystems in Bedono Village, Demak Regency, Central Java, are seriously degraded due to aggressive coastal abrasion, extreme soil salinity (45‰-80‰), and failure of previous rehabilitation programmes. This study aims to assess the level of vulnerability of mangrove habitat and formulate an integrated rehabilitation strategy that includes ecological and institutional aspects. Data were collected through tidal analysis, measurement of sediment texture and soil salinity, identification of plankton and macrobenthos diversity, and analysis of mangrove species community structure. The Coastal Vulnerability Index (CVI) was calculated based on four biophysical parameters, namely tidal inundation duration, maximum inundation height, soil salinity, and substrate type. Spatial analysis was conducted using ArcGIS 10 software to map the zones with high vulnerability. In addition, the Analytical Network Process (ANP) approach was used to prioritise ecological and institutional problems and develop solutions based on stakeholder interviews and expert validation. The results showed that the mangrove ecosystem in Bedono is highly vulnerable, with tidal inundation for 29-31 days per month, an average inundation height of 0.97 m, and a dominance of loamy sand textured soil. Avicennia marina species dominated in all growth stages, while the diversity of other species was very low. Key problems identified include coastal abrasion, low planting success rates due to non-adaptive techniques, and weak coordination between stakeholders. Priority solutions include installation of sediment traps, implementation of adaptive planting techniques, community involvement in monitoring, and establishment of village regulations to support programme sustainability. This study provides a new framework for integrating CVI-based ecological vulnerability mapping and institutional analysis to support comprehensive mangrove rehabilitation planning in heavily impacted coastal areas.</p>","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"86"},"PeriodicalIF":2.6,"publicationDate":"2025-08-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12392581/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982424","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Forecasting climate change effects on the potential distribution of Zhumeria Majdae as an endangered monotypic endemic species: a maxent modeling approach.","authors":"Naser Hosseini, Ahmadreza Mehrabian, Farzaneh Khajoei Nasab, Hossein Mostafavi, Mansour Ghorbanpour","doi":"10.1186/s12862-025-02431-6","DOIUrl":"https://doi.org/10.1186/s12862-025-02431-6","url":null,"abstract":"<p><p>Medicinal plants are invaluable sources of bioactive compounds and continue to serve as primary medicine for many people worldwide, despite advances in pharmaceuticals. Their recognition has increased with the popularity of herbal products, yet many are vanishing rapidly. Climate change further threatens these resources, making their conservation a pressing concern. This study aimed to evaluate current range and the potential impact of climate change on the future distribution of Zhumeria majdae, an endangered and endemic medicinal species in Iran, and to identify priority areas for its conservation. Using 56 occurrence records and 7 environmental variables, the MaxEnt model was employed to project current and future habitat suitability under two climate scenarios (RCP 4.5 and RCP 8.5) for the 2050s and 2070s. The model performed excellently (AUC = 0.977, TSS = 0.807 ). Among the variables used, solar radiation contributed the most (26%), followed by slope (12%), pH index (2.5%), Bio6 (1.1%), Bio19 (26.3%), Bio10 (0.7%), and Bio18 (31.3%). The results predicted suitable range in Hormozgan, South of Kerman and Fars provinces. Also, modeling projected a notable shift in the geographic distribution of Z. majdae under climate change scenarios. The suitable habitat is projected to expand by 20.12% under RCP 4.5 and by 29.95% under RCP 8.5 in the 2050s. In the 2070s, an increase of 21.63% is expected under RCP 4.5, while a slight contraction of 1.15% is projected under RCP 8.5. Based on these findings, it is recommended to prioritize conservation efforts in areas projected to remain suitable in both current and future climates. Establishing in-situe and ex-situ conservation sites, introduce protected areas in new habitat projected, and initiating habitat restoration in emerging suitable zones could enhance the species' long-term survival prospects.</p>","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"85"},"PeriodicalIF":2.6,"publicationDate":"2025-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12379370/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982369","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"NCBITaxonomy.jl: rapid biological names finding and reconciliation.","authors":"Timothée Poisot, Rory Gibb, Sadie J Ryan, Colin J Carlson","doi":"10.1186/s12862-025-02425-4","DOIUrl":"https://doi.org/10.1186/s12862-025-02425-4","url":null,"abstract":"<p><p>NCBITaxonomy.jl is a Julia package designed to address the complex challenges of taxonomic name reconciliation using a local copy of the NCBI taxonomic backbone (Federhen in Nucleic Acids Res 40:D136-D143, 2012, Schoch et al. in Database 2020:baaa062, 2020). The package provides advanced name matching capabilities that handle common issues in taxonomic data, including synonyms, homonyms, vernacular names, nomenclatural changes, and typographical errors. Core functionalities include case-insensitive search, customizable fuzzy string matching, and taxonomically-restricted searches. The package implements a robust exception system that explicitly handles ambiguous matches without interrupting workflow execution, enabling automated processing of large datasets. NCBITaxonomy.jl works with Julia 1.6 and up, uses Apache Arrow format for efficient local storage. It provides lineage navigation and taxonomic distance functions. The package has been successfully deployed in large-scale projects for automated name reconciliation and cleaning, demonstrating its effectiveness for high-throughput name reconciliation across heterogeneous biological datasets. The design prioritizes programmatic access over command-line usage, making it well-suited for integration into bioinformatics pipelines requiring reliable taxonomic standardization.</p>","PeriodicalId":93910,"journal":{"name":"BMC ecology and evolution","volume":"25 1","pages":"84"},"PeriodicalIF":2.6,"publicationDate":"2025-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12366413/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144982444","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}