Pub Date : 2023-05-04DOI: 10.1007/s12686-023-01302-w
Marion Chevrinais, G. Parent
{"title":"A validated targeted assay for environmental DNA detections of the Atlantic wolffish (Anarhichas lupus)","authors":"Marion Chevrinais, G. Parent","doi":"10.1007/s12686-023-01302-w","DOIUrl":"https://doi.org/10.1007/s12686-023-01302-w","url":null,"abstract":"","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"1 1","pages":"1-8"},"PeriodicalIF":1.1,"publicationDate":"2023-05-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42682930","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}
Pub Date : 2023-04-19DOI: 10.1007/s12686-023-01301-x
T. Delomas, Jennifer Struthers, Tricia Hebdon, M. Campbell
{"title":"Development of a microhaplotype panel to inform management of gray wolves","authors":"T. Delomas, Jennifer Struthers, Tricia Hebdon, M. Campbell","doi":"10.1007/s12686-023-01301-x","DOIUrl":"https://doi.org/10.1007/s12686-023-01301-x","url":null,"abstract":"","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"1 1","pages":"1-9"},"PeriodicalIF":1.1,"publicationDate":"2023-04-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48276954","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}
Pub Date : 2023-04-01DOI: 10.1007/s12686-023-01299-2
Teia M. Schweizer, M. DeSaix
{"title":"Cost-effective library preparation for whole genome sequencing with feather DNA","authors":"Teia M. Schweizer, M. DeSaix","doi":"10.1007/s12686-023-01299-2","DOIUrl":"https://doi.org/10.1007/s12686-023-01299-2","url":null,"abstract":"","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":" ","pages":"1-8"},"PeriodicalIF":1.1,"publicationDate":"2023-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46803150","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}
Pub Date : 2023-02-28DOI: 10.1007/s12686-023-01297-4
Qian Wang, Chunjing Wang, J. Wan
{"title":"Development and characterization of 165 SNP markers in Mimosa bimucronata (Candolle) O. Kuntze","authors":"Qian Wang, Chunjing Wang, J. Wan","doi":"10.1007/s12686-023-01297-4","DOIUrl":"https://doi.org/10.1007/s12686-023-01297-4","url":null,"abstract":"","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":" ","pages":"1-8"},"PeriodicalIF":1.1,"publicationDate":"2023-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47184586","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}
Acheilognathusbarbatulus is distributed in Yangtze River, Yellow River and Pearl River systems in China. Genome data can help to understand the phylogenetic relationships of A.barbatulus, but its complete mitochondrial genome has not been published. We determined the complete mitochondrial genome structure and characteristics of this species and constructed a comprehensive phylogenetic tree, based on mitochondrial genome data of several species of Acheilognathus, Rhodeus and Pseudorasboraparva. The complete length of the mitochondrial genome of A.barbatulus is 16726 bp. The genome is a covalently closed double-stranded circular molecule containing 13 protein-coding genes, two ribosomal RNAs, 22 transfer RNAs, a D-loop and a light strand replication initiation region. The base composition of the complete mitochondrial genome is A (29.33%) > T (27.6%) > C (26.12%) > G (16.95%), showing a strong AT preference and anti-G bias. All 13 PCGs have different degrees of codon preference, except for cytochrome c oxidase 1, which uses GTG as the start codon. All the PCGs use ATG as the start codon and the stop codon is dominated by TAG. The encoded amino acids Leu and Ser exist in two types, whereas the rest are all present as one type, except for tRNASer (GCT), which lacks the D-arm and has an incomplete secondary structure, all other tRNAs can be folded to form a typical cloverleaf secondary structure. Based on the 13 PCG tandems, the Maximum Likelihood and Bayesian trees were constructed, based on the concatenated sequence of 13 PCGs for the genera Acheilognathus and Rhodeus, with Pseudorasboraparva as the outgroup. Acheilognathusbarbatulus, Acheilognathustonkinensis and Acheilognathuscf.macropterus were clustered together and the most closely related. The results of this study enrich the mitochondrial genomic data of Acheilognathus and provide molecular and genetic base information for species conservation, molecular identification and species evolution of Acheilognathinae.
Acheilognathusbarbatulus分布于中国的长江、黄河和珠江水系。基因组数据有助于了解巴塘鳢的系统发育关系，但其完整的线粒体基因组尚未公布。我们基于Acheilognathus、Rhodeus和Pseudorasboraparva等多个物种的线粒体基因组数据，确定了该物种完整的线粒体基因组结构和特征，并构建了完整的系统发生树。A.barbatulus 的线粒体基因组全长为 16726 bp。基因组是一个共价闭合的双链环状分子，包含 13 个蛋白质编码基因、2 个核糖体 RNA、22 个转移 RNA、1 个 D 环和 1 个轻链复制起始区。完整线粒体基因组的碱基组成为 A（29.33%）> T（27.6%）> C（26.12%）> G（16.95%），显示出强烈的 AT 偏好和反 G 偏好。除了细胞色素 c 氧化酶 1 使用 GTG 作为起始密码子外，其他 13 个 PCG 都有不同程度的密码子偏好。所有 PCG 都使用 ATG 作为起始密码子，终止密码子以 TAG 为主。除了 tRNASer（GCT）缺少 D 臂，二级结构不完整外，其他 tRNA 都可以折叠形成典型的苜蓿叶二级结构。根据 13 个 PCG 串联序列，以 Pseudorasboraparva 为外群，构建了 Acheilognathus 属和 Rhodeus 属的最大似然树和贝叶斯树。Acheilognathusbarbatulus、Acheilognathustonkinensis和Acheilognathuscf.macropterus聚类在一起，亲缘关系最为密切。研究结果丰富了Acheilognathus的线粒体基因组数据，为Acheilognathinae的物种保护、分子鉴定和物种进化提供了分子和遗传基础信息。
{"title":"Mitochondrial genome of <i>Acheilognathusbarbatulus</i> (Cypriniformes, Cyprinidae, Acheilognathinae): characterisation and phylogenetic analysis.","authors":"Jinhui Yu, Xin Chen, Ruyao Liu, Yongtao Tang, Guoxing Nie, Chuanjiang Zhou","doi":"10.3897/BDJ.11.e93947","DOIUrl":"10.3897/BDJ.11.e93947","url":null,"abstract":"<p><p><i>Acheilognathusbarbatulus</i> is distributed in Yangtze River, Yellow River and Pearl River systems in China. Genome data can help to understand the phylogenetic relationships of <i>A.barbatulus</i>, but its complete mitochondrial genome has not been published. We determined the complete mitochondrial genome structure and characteristics of this species and constructed a comprehensive phylogenetic tree, based on mitochondrial genome data of several species of <i>Acheilognathus</i>, <i>Rhodeus</i> and <i>Pseudorasboraparva</i>. The complete length of the mitochondrial genome of <i>A.barbatulus</i> is 16726 bp. The genome is a covalently closed double-stranded circular molecule containing 13 protein-coding genes, two ribosomal RNAs, 22 transfer RNAs, a D-loop and a light strand replication initiation region. The base composition of the complete mitochondrial genome is A (29.33%) > T (27.6%) > C (26.12%) > G (16.95%), showing a strong AT preference and anti-G bias. All 13 PCGs have different degrees of codon preference, except for cytochrome c oxidase 1, which uses GTG as the start codon. All the PCGs use ATG as the start codon and the stop codon is dominated by TAG. The encoded amino acids Leu and Ser exist in two types, whereas the rest are all present as one type, except for tRNA<sup>Ser (GCT)</sup>, which lacks the D-arm and has an incomplete secondary structure, all other tRNAs can be folded to form a typical cloverleaf secondary structure. Based on the 13 PCG tandems, the Maximum Likelihood and Bayesian trees were constructed, based on the concatenated sequence of 13 PCGs for the genera <i>Acheilognathus</i> and <i>Rhodeus</i>, with <i>Pseudorasboraparva</i> as the outgroup. <i>Acheilognathusbarbatulus</i>, <i>Acheilognathustonkinensis</i> and Acheilognathuscf.macropterus were clustered together and the most closely related. The results of this study enrich the mitochondrial genomic data of <i>Acheilognathus</i> and provide molecular and genetic base information for species conservation, molecular identification and species evolution of Acheilognathinae.</p>","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"6 1","pages":"e93947"},"PeriodicalIF":1.3,"publicationDate":"2023-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10848848/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74403623","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2022-11-16DOI: 10.1007/s12686-022-01294-z
A. Vollmer, M. Tringali, M. Allen
{"title":"Development and characterization of 148 SNP markers in the caribbean symmetrical brain coral Pseudodiploria strigosa","authors":"A. Vollmer, M. Tringali, M. Allen","doi":"10.1007/s12686-022-01294-z","DOIUrl":"https://doi.org/10.1007/s12686-022-01294-z","url":null,"abstract":"","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"14 1","pages":"381 - 386"},"PeriodicalIF":1.1,"publicationDate":"2022-11-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43045802","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}
{"title":"Identification of cetaceans from bones using molecular techniques provides insights into cetacean species diversity and composition in coastal western Taiwan Strait waters, China","authors":"Yufei Dai, Liyuan Zhao, Fuxing Wu, X. Miao, Qianhui Zeng, Xianyan Wang","doi":"10.1007/s12686-022-01296-x","DOIUrl":"https://doi.org/10.1007/s12686-022-01296-x","url":null,"abstract":"","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"15 1","pages":"1 - 5"},"PeriodicalIF":1.1,"publicationDate":"2022-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47308764","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}
Pub Date : 2022-11-10DOI: 10.1007/s12686-022-01295-y
Chunhua Zhou, Jinping Chen, Ting Guo, S. Ouyang, Xiaoping Wu
{"title":"Environmental DNA metabarcoding reveals the biological community structure in Poyang Lake, China","authors":"Chunhua Zhou, Jinping Chen, Ting Guo, S. Ouyang, Xiaoping Wu","doi":"10.1007/s12686-022-01295-y","DOIUrl":"https://doi.org/10.1007/s12686-022-01295-y","url":null,"abstract":"","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"14 1","pages":"437 - 448"},"PeriodicalIF":1.1,"publicationDate":"2022-11-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43805464","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}
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