High-efficiency 18S microalgae barcoding by coalescent,distance and character-based approaches: a test in Chlorella and Scenedesmus  

作　　者：ZOU Shanmei FEI Cong YANG Weinan HUANG Zheng HE Meilin WANG Changhai 邹山梅;费聪;杨未男;黄铮;何梅琳;王长海(College of Resources and Environmental Science,Nanjing Agricultural University)

机构地区：College of Resources and Environmental Science,Nanjing A gricultural University,Nanjing 210095,China

出　　处：《Journal of Oceanology and Limnology》2018年第5期1771-1777,共7页海洋湖沼学报（英文）

基　　金：Supported by the China Post-doctoral Science Foundation(Nos.2014M561661,2015T80558);the Natural Science Foundation of Jiangsu Province(No.BK20150680);the National Natural Science Foundation of China(No.31600294);the Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization and Fundamental Research Funds for the Central Universities of Ministry of Education of China(No.Y0201600141)

摘　　要：The relatively conserved 18S is often used in the phylogenetic analysis of microalgae. However, whether it can really help in barcoding microalgae needs to be evaluated. In this study the multiple approaches of coalescent, distance and character-based barcoding are first employed in C hlorella and Scenedesmus to test the efficiency of 18S sequences for barcoding green microalgae. We show that most Chlorella and Scenedesmus species, including the cryptic species, can be distinguished by 18S sequences with all coalescent General Mixed Yule-coalescent(GMYC), poisson tree process(PTP), and P ID, distance(ABGD) and character-based approaches. Both GMYC and PTP analyses produce more genetic groups. The P ID and ABGD analyses only cluster some species. All species(apart from a few of lineages) can be separated in character-based barcoding analysis with more than three character attributes. In comparison with previous barcoding results with r bcL, tufA, ITS and 16 S, 18S produces good resolution in identifying Chlorella and Scenedesmus. Our results reveal that 18S is highly efficient in identifying taxa of green microalgae at species level, based on a combination of multiple barcoding approaches. Combining 18S with other gene markers may be useful in barcoding microalgae.The relatively conserved 18S is often used in the phylogenetic analysis of microalgae. However, whether it can really help in barcoding microalgae needs to be evaluated. In this study the multiple approaches of coalescent, distance and character-based barcoding are first employed in C hlorella and Scenedesmus to test the efficiency of 18S sequences for barcoding green microalgae. We show that most Chlorella and Scenedesmus species, including the cryptic species, can be distinguished by 18S sequences with all coalescent General Mixed Yule-coalescent（GMYC）, poisson tree process（PTP）, and P ID, distance（ABGD） and character-based approaches. Both GMYC and PTP analyses produce more genetic groups. The P ID and ABGD analyses only cluster some species. All species（apart from a few of lineages） can be separated in character-based barcoding analysis with more than three character attributes. In comparison with previous barcoding results with r bcL, tufA, ITS and 16 S, 18S produces good resolution in identifying Chlorella and Scenedesmus. Our results reveal that 18S is highly efficient in identifying taxa of green microalgae at species level, based on a combination of multiple barcoding approaches. Combining 18S with other gene markers may be useful in barcoding microalgae.

关 键 词：General Mixed Yule-coalescent （GMYC） poisson tree process （PTP） and PID distance （ABGD）character-based DNA barcoding MICROALGAE 18S CHLORELLA SCENEDESMUS 

分 类 号：S968.4[农业科学—水产养殖] S511[农业科学—水产科学]