DNA-barcoding reveals cryptic diversity and re-evaluation of Ocypode (family: Ocypodidae) from the Sundarbans - UNESCO World Heritage Centre

Q4 Biochemistry, Genetics and Molecular Biology

Animal Gene Pub Date : 2022-08-01 DOI:10.1016/j.angen.2022.200127

Ananya Mazumder , Bishal Dhar , Sankar Kumar Ghosh

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引用次数: 1

Abstract

Crabs are one of the most diversified crustaceans among metazoans, from both morphological and ecological point of view. Among them, ghost crabs (Genus Ocypode; Family Ocypodidae) play an important role in the tropical and sub-tropical intertidal ecosystems. Due to a lack of comprehensive data, their cryptic behaviour, mimicry or camouflage, and a lack of formal taxonomic documentation, identification of this group is often difficult. Molecular taxonomy can help to overcome these barriers by assisting in species identification. The present study is the first large scale attempt to identify ghost crabs using DNA barcodes, which are now available globally, for 16 morphospecies in the genus Ocypode. A total of 164 barcodes were analysed for species delimitation that are available globally including specimens collected from the Indian Sundarbans. Various species delimitation methods (K2P, NJ, Bayesian supported PTP and Bayesian tree) revealed a total of 19 MOTUs for 16 distinct species where multiple MOTUs were observed in 3 species with inconsistencies in genetic distances and tree topologies. We recognised cryptic diversity in Ocypode macrocera, O. platytarsis and O. quadrata with intraspecies distances greater than the species delimitation threshold of 0.053 ± 0.01. The current study also concluded that O. platytarsis and O. brevicornis are two distinct species, putting an end to the debate over their species synonymy. Furthermore, our Bayesian analysis confirmed the retraction of the genus Hoplocypode specified only for O. occidentalis. As a result, the current research added a new dimension to ghost crab taxonomy by contributing to the detection of cryptic species, thus speculating the possibility of new species and reaffirming the effectiveness of the DNA barcoding while demanding enrichment of the global database for comprehensive species identification and extensive approach of molecular taxonomy as well as morphological interventions in solving taxonomic puzzles.

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联合国教科文组织世界遗产中心孙德尔本斯岛的半足虫(科:半足虫科)的dna条形码揭示了其神秘的多样性和重新评价

从形态学和生态学的角度来看，螃蟹是后生动物中最多样化的甲壳类动物之一。其中，鬼蟹属;在热带和亚热带潮间带生态系统中扮演着重要的角色。由于缺乏全面的数据，它们的隐蔽行为，模仿或伪装，以及缺乏正式的分类文件，这一群体的识别往往是困难的。分子分类学可以通过协助物种鉴定来克服这些障碍。目前的研究是第一次使用DNA条形码来识别鬼蟹的大规模尝试，这种条形码现在在全球范围内可用，用于鬼蟹属的16种形态。总共分析了164个条形码，用于全球可用的物种划分，包括从印度孙德尔本斯收集的标本。各种物种划分方法(K2P、NJ、贝叶斯支持PTP和贝叶斯树)共发现16个不同物种的19个motu，其中3个物种存在多个motu，遗传距离和树拓扑结构不一致。我们发现大角足虫、扁足虫和方足虫的隐性多样性，种内距离大于种界阈值0.053±0.01。目前的研究还得出结论说，长颈角鲨和短颈角鲨是两个不同的物种，结束了关于它们物种同义词的争论。此外，我们的贝叶斯分析证实了仅为O. occidentalis指定的Hoplocypode属的退缩。因此，本研究通过对隐种的检测，为鬼蟹分类增加了一个新的维度，从而推测了新物种的可能性，并重申了DNA条形码的有效性，同时也需要丰富全球数据库以进行全面的物种鉴定，以及广泛的分子分类方法和形态学干预来解决分类难题。

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来源期刊

Animal Gene Agricultural and Biological Sciences-Insect Science

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期刊介绍： Gene Reports publishes papers that focus on the regulation, expression, function and evolution of genes in all biological contexts, including all prokaryotic and eukaryotic organisms, as well as viruses. Gene Reports strives to be a very diverse journal and topics in all fields will be considered for publication. Although not limited to the following, some general topics include: DNA Organization, Replication & Evolution -Focus on genomic DNA (chromosomal organization, comparative genomics, DNA replication, DNA repair, mobile DNA, mitochondrial DNA, chloroplast DNA). Expression & Function - Focus on functional RNAs (microRNAs, tRNAs, rRNAs, mRNA splicing, alternative polyadenylation) Regulation - Focus on processes that mediate gene-read out (epigenetics, chromatin, histone code, transcription, translation, protein degradation). Cell Signaling - Focus on mechanisms that control information flow into the nucleus to control gene expression (kinase and phosphatase pathways controlled by extra-cellular ligands, Wnt, Notch, TGFbeta/BMPs, FGFs, IGFs etc.) Profiling of gene expression and genetic variation - Focus on high throughput approaches (e.g., DeepSeq, ChIP-Seq, Affymetrix microarrays, proteomics) that define gene regulatory circuitry, molecular pathways and protein/protein networks. Genetics - Focus on development in model organisms (e.g., mouse, frog, fruit fly, worm), human genetic variation, population genetics, as well as agricultural and veterinary genetics. Molecular Pathology & Regenerative Medicine - Focus on the deregulation of molecular processes in human diseases and mechanisms supporting regeneration of tissues through pluripotent or multipotent stem cells.