Conservation Genetics Resources最新文献_第4页

Does mesocosm validation of environmental DNA methods translate to natural environment monitoring applications? A case study detecting a high-profile invader; the red eared slider turtle, Trachemys scripta elegans, in Australia 环境DNA方法的中观验证是否转化为自然环境监测应用?一个检测高调入侵者的案例研究;澳大利亚的红耳滑龟(Trachemys scripta elegans)

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-12-02 DOI: 10.1007/s12686-023-01333-3

Jack Rojahn, Alejandro Trujillo-González, Dianne Gleeson, Nathan Cutter, Elise M. Furlan

{"title":"Does mesocosm validation of environmental DNA methods translate to natural environment monitoring applications? A case study detecting a high-profile invader; the red eared slider turtle, Trachemys scripta elegans, in Australia","authors":"Jack Rojahn, Alejandro Trujillo-González, Dianne Gleeson, Nathan Cutter, Elise M. Furlan","doi":"10.1007/s12686-023-01333-3","DOIUrl":"https://doi.org/10.1007/s12686-023-01333-3","url":null,"abstract":"Environmental DNA (eDNA) surveys have gained popularity as a highly sensitive detection tool that generally outperform traditional detection techniques. eDNA surveys can provide a cost-effective means to identify species’ distributions and recent incursions, informing the control or containment of invasive species. The red-eared slider turtle, Trachemys scripta elegans, is one of the world’s most invasive species and is listed as a priority pest species for management in Australia. In this study, we validate two eDNA assays to detect this invasive turtle in Australia. We demonstrate high sensitivity in a laboratory setting and perfect detection rates in mesocosms for one of these eDNA assays but show that this does not translate to high detection rates in urban waterbodies at sites of known occupancy. In fact, our results suggest eDNA surveys provide sub-optimal performance compared to traditional detection methods for T.s. elegans. We suggest the capacity for eDNA surveys to provide a highly sensitive detection tool must be evaluated in natural environments on a species-by-species basis to understand any limitations and to avoid high error rates from eDNA surveys leading to wasted resources or inappropriate management decisions. For management of T.s. elegans in Australia, clearly defining the utility of certain eDNA based approaches to detect T.s. elegans and their incursions is vital for effective management of this pest species.","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"50 3","pages":""},"PeriodicalIF":1.1,"publicationDate":"2023-12-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138513211","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Isolation and characterization of 48 SNP markers of sleepy cod, Oxyeleotris lineolata by whole-genome resequencing 嗜睡鳕鱼(Oxyeleotris lineolata) 48个SNP标记的全基因组重测序研究

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-12-02 DOI: 10.1007/s12686-023-01334-2

Jiajia Fan, Dongmei Ma, Huaping Zhu, Minghui Lin, Huanhuan Su, Zaixuan Zhong

引用次数: 0

A size and taxonomic assessment of non-lethal DNA sampling of gastropods using Flinders Technology Associates (FTA) cards 使用弗林德斯技术协会(FTA)卡对腹足类动物非致死DNA取样的大小和分类评估

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-22 DOI: 10.1007/s12686-023-01325-3

Kelley Leung

{"title":"A size and taxonomic assessment of non-lethal DNA sampling of gastropods using Flinders Technology Associates (FTA) cards","authors":"Kelley Leung","doi":"10.1007/s12686-023-01325-3","DOIUrl":"https://doi.org/10.1007/s12686-023-01325-3","url":null,"abstract":"Sampling the DNA of rare animal species should have minimal impacts on individual health. This can be accomplished through non-lethal/non-invasive sampling. Few of these methods have been developed for invertebrates, including the Mollusca, which are in global decline. Tissue clipping the foot is a common non-lethal method for gastropods. However, it causes permanent damage and is inappropriate for smaller snails. This study used Flinders Technology Associates (FTA) cards to sample DNA from snail mucus for species of different sizes and habitat types, and across evolutionarily distant lineages. In a survival assay, the death rate of individuals sampled with FTA cards (12.1%) was greater than in the controls (3.7%), but the difference was not significant. Of 224 individuals representing 27 snail species (17 Hawaiian native, ten non-native) sampled using both FTA cards and tissue clipping, 80.4% of FTA samples and 91.6% of tissue samples amplified for COI, a significant difference. COI sequencing success did not differ significantly between the two methods. For individuals that failed to produce a COI sequence, an attempt was made to sequence 16S. For 16S, amplification and sequencing rates did not differ significantly between FTA and tissue samples. Habitat type and shell size did not affect FTA sampling success. Phylogenetically basal taxa exhibited lower success rates, but this may have been because of difficulty in sampling operculate taxa, and not because of identity. These results indicate that the FTA sampling is a viable non-lethal alternative to tissue clipping and can be used for diverse gastropods.","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"31 6","pages":""},"PeriodicalIF":1.1,"publicationDate":"2023-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138525369","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Species identification method by a new non-invasive technique in Korean endangered terrestrial snail, Koreanohadra Koreana (Gastropoda: Mollusca) 韩国濒临灭绝的陆生蜗牛Koreanohadra Koreana(腹足纲:软体动物)的非入侵鉴定新方法

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-21 DOI: 10.1007/s12686-023-01332-4

Deokjea Cha, Jin-Young Kim, Kang-San Kim, Young-Joong Kim

{"title":"Species identification method by a new non-invasive technique in Korean endangered terrestrial snail, Koreanohadra Koreana (Gastropoda: Mollusca)","authors":"Deokjea Cha, Jin-Young Kim, Kang-San Kim, Young-Joong Kim","doi":"10.1007/s12686-023-01332-4","DOIUrl":"https://doi.org/10.1007/s12686-023-01332-4","url":null,"abstract":"Koreanohadra koreana (K. koreana) is an endemic species in South Korea that is listed as endangered. While the ecology and phylogenetics of K. koreana have been studied, its morphological similarity to the related species Koreanohadra kurodana (K. kurodana), can make species identification difficult. Furthermore, this has led to confusion when determining essential habitat information for the conservation of K. koreana. To bypass this issue, we have developed a non-invasive species identification method that can genetically differentiate between them. While there are already various non-invasive genomic DNA (gDNA) extraction methods that utilize the mucus from mollusks, they are limited as they require the target species to be physically located. To address this, in this investigation a method of extracting gDNA from the feces of snails was developed. The method utilized a primer set to amplify a cytochrome b fragment from K. koreana but not K. kurodana or other terrestrial snails. The feces of terrestrial snails could thus be used to obtain gDNA to a genetically usable level if collected within 5 days of excretion. This non-invasive species identification method using feces will help to facilitate genetic research without harming the endangered species and if the target species is not physically in the habitat. Moreover, K. koreana and K. kurodana could perhaps be further distinguished, using their habitat information to help facilitate essential conservation measures.","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"23 2-3","pages":""},"PeriodicalIF":1.1,"publicationDate":"2023-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138525475","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Development and characterization of 68 SNP markers in red sea bream, Pagrus major 红鲷68个SNP标记的开发与鉴定

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-21 DOI: 10.1007/s12686-023-01337-z

Jeong Gyu Kim, Seung Hyun Yoo, Yong Bae Seo, Jong-Oh Kim, Gun-Do Kim

引用次数: 0

Development of SNP markers to identify the sex of the giant panda from naturally degraded fecal samples 开发从自然降解的粪便样本中识别大熊猫性别的SNP标记

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-21 DOI: 10.1007/s12686-023-01326-2

Wei Xu, Daxing Xie, Jie Kou, Xiuyue Zhang, Yan Li, Ye Wang, Liang Zhang, Hong Liu, Jiawen Liu, Juan Wang, Li Luo, Xiaolan Wang, Kongju Wu, Fujun Shen

引用次数: 0

Development of SSR markers in top-mouth culter (Erythroculter ilishaeformis) based on high-throughput sequencing 基于高通量测序的上口菌SSR标记的开发

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-16 DOI: 10.1007/s12686-023-01336-0

Huimin Xu, Bing Gong, Dandan Ju, Mingsong Xiao

引用次数: 0

An R-based tool for identifying sex-linked markers from restriction site-associated DNA sequencing with applications to elasmobranch conservation 一个基于r的工具，用于从限制性位点相关DNA测序中识别性别连锁标记，并应用于elasmobranch保护

IF 1.1 4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-16 DOI: 10.1007/s12686-023-01331-5

Floriaan Devloo-Delva, Thierry Gosselin, Paul A. Butcher, Peter M. Grewe, Charlie Huveneers, Robin B. Thomson, Jonathan M. Werry, Pierre Feutry

{"title":"An R-based tool for identifying sex-linked markers from restriction site-associated DNA sequencing with applications to elasmobranch conservation","authors":"Floriaan Devloo-Delva, Thierry Gosselin, Paul A. Butcher, Peter M. Grewe, Charlie Huveneers, Robin B. Thomson, Jonathan M. Werry, Pierre Feutry","doi":"10.1007/s12686-023-01331-5","DOIUrl":"https://doi.org/10.1007/s12686-023-01331-5","url":null,"abstract":"Identifying sex-linked markers from genomic data has both theoretical and applied importance, especially in conservation. Yet, few methods and tools exist to detect such markers from Restriction-site-Associated DNA sequencing reads and even fewer tools can identify sex-linked markers from existing genotyped data. Here, we describe a new R function that can identify sex-linked markers in species with partially non-recombining sex chromosomes. We test the accuracy and speed of our function with an example dataset from a species of conservation concern, the White Shark, Carcharodon carcharias. We further compare our method against other approaches and find that our method detects more sex-linked markers that can be reliably mapped to reference genomes. Overall, we provide a conservation and fisheries-relevant tool that can reliably and efficiently assign sex from genetic data in species with a heterogametic sex and we demonstrate its utility by developing a sex-identification PCR test for White Sharks.","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"95 2","pages":""},"PeriodicalIF":1.1,"publicationDate":"2023-11-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138525368","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

Multiplex PCR assay to distinguish among three widespread brown frog species 三种分布广泛的褐蛙的多重PCR鉴别

4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-09 DOI: 10.1007/s12686-023-01338-y

Polina Chernigova, Oleg Ermakov, Artem Lisachev, Anton Svinin, Evgeniy Simonov

引用次数: 0

Development of 96 SNP markers for Amorphophallus yuloensis, a species distributed across southwestern China 分布在中国西南地区的云南魔芋(Amorphophallus yuloensis) 96个SNP标记的开发

4区环境科学与生态学

Conservation Genetics Resources Pub Date : 2023-11-04 DOI: 10.1007/s12686-023-01327-1

Yong Gao, Yanan Zhang, Honglong Chu, Si Yin

引用次数: 0