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Applications of next-generation sequencing to the study of biological invasions

Current Zoology 2015年第3期61卷 488-504页

作者： Marc RIUS Steve BOURNE Harry Guy HORNSBY Mark A. CHAPMAN Ocean and Earth Science National Oceanography Centre Southampton University of Southampton SO 14 3ZH UK Centre for Biological Sciences Life Sciences Building 85 University of Southampton Southampton SO 17 1B J UK

Through the widespread implementation of next-generation sequencing （NGS）, analyses of the whole genome （the entire DNA content） and the whole transcriptome （the genes being expressed） are becoming commonplace. NGS enables the analysis of a vast amount of previously unattainable genetic information. Despite this potential, NGS has yet to be widely imple- mented in genetic studies of biological invasions. The study of the genomic causes and consequences of biological invasions al- lows a deeper understanding of the molecular mechanisms underpinning the invasion process. In this review, we present a brief introduction to NGS followed by a synthesis of current research in the genomics and transcriptomics of adaptation and coloniza- tion. We then highlight research opportunities in the field, including：（1） assembling genomes and transcriptomes of non-model organisms, （2） identifying genomic regions and candidate genes underlying evolutionary processes, and （3） studying the adaptive role of gene expression variation. In particular, because introduced species face a broad range of physiological and biotic chal- lenges when colonizing novel and variable environments, transcriptomics will enable the study of gene regulatory pathways that may be responsible for acclimation or adaptation. To conclude, we identify a number of research approaches that will aid our fu- ture understanding of biological invasions

关键词： Exotic species Genomics Genotype-environment interactions Invasive species invasion genetics invasion route Non-indigenous species Non-native species

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The origin of invasion of an alien frog species in Tibet, China

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Current Zoology 2017年第6期63卷 615-621页

作者： Supen WANG Liqing FAN Conghui LIU Jiaqi LI Xu GAO Wei ZHU Yiming LI Institute of Zoology Chinese Academy of Sciences Key Laboratory of Animal Ecology and Conservation Biology Beijing 100101 China Institute of Plateau Ecology Tibet Agriculture and Animal Husbandry College Bayi Town Linzhi County Xizang Province 860000 China National Forest Ecosystem Observation & Research Station of Tibet Linzhi Linzhi 860000 China University of Chinese Academy of Sciences Beijing 100049 China Nanjing Institute of Environmental Sciences under Ministry of Environmental Protection of China Nanjing 210042 China

Identifying the origins of alien species has important implications for effectively controlling the spread of alien species. The black-spotted frog Pelophylax nigromaculatus, originally from East Asia, has become an alien species on the Tibetan Plateau （TP）. In this study, we collected 300 individuals of P. nigromaculatus from 13 native regions and 2 invasive regions （including Nyingchi and Lhasa） on the TP. To identify the source region of the TP introductions, we sequenced portions of the mitochondrial cyt b gene. We sequenced a -600-bp portion of the mitochondrial cyt b gene to identify 69 haplotypes （124 polymorphic sites） in all sampled populations. According to the network results, we suggest that the P. nigromaculatus found on the TP was most likely originated from Chongqing by human introduction. Furthermore, we found that the genetic diversity was significantly lower for invasive than for native sites due to founder effects. Our study provides genetic evidence that this alien species invaded the cold environment of high elevations and expanded the distribution of P. nigromaculatus in China.

关键词： alien species amphibians chytridiomycosis cold environment invasion genetics invasion route Sbetan Plateau.

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