PDF(Pubmed)
Abstract：
Calanoid copepod populations are being severely affected due to the effects of ocean acidification (OA) and ocean warming (OW). These marine organisms are the most abundant primary consumers contributing significantly in the marine food web. Any effect on the abundance and diversity of copepods due to climate change is likely to have serious implications on the marine ecosystem functioning. Molecular studies that play a vital role in assessing the genetic changes under the influence of environmental imbalances are completely lacking for this species. Here we report the genetic variations in three generations of copepods through transcriptome sequencing. RNA sequencing was performed on an Illumina HiSeq platform employing the 2 × 100 bp paired-end chemistry. Approximately, 10GB of data was obtained for all the samples. The raw sequences were assembled through Trinity 2.6.6 and mined for single nucleotide polymorphisms (SNPs) and simple sequence repeats (SSRs). MIcroSAtellite Identification Tool (MISA) was used for SSR detection and Primer 3 (v 3.0) was utilized to design short oligonucleotide primers (18-20 mers). A total of 15,222 SSRs were identified and 28,944 primer pairs were designed against these motifs. The transcriptome possessed 413,890 SNPs at a frequency of 2.8 per kb. The newly discovered SSRs and SNPs could act as genetic markers for future studies on genetic diversity and conservation for Parvocalanus crassirostris.
摘要：
由于海洋酸化（OA）和海洋变暖（OW）的影响，类cal足类co足类种群受到严重影响。这些海洋生物是在海洋食物网中做出重大贡献的最丰富的主要消费者。气候变化对co足类的丰度和多样性的任何影响都可能对海洋生态系统的功能产生严重影响。该物种完全缺乏在评估环境失衡影响下的遗传变化中起至关重要作用的分子研究。在这里，我们通过转录组测序报告了三代co足类动物的遗传变异。在IlluminaHiSeq平台上使用2×100bp配对末端化学进行RNA测序。大约,对于所有样品获得10GB的数据。通过Trinity2.6.6组装原始序列，并挖掘单核苷酸多态性（SNP）和简单序列重复（SSR）。MIcros卫星鉴定工具（MISA）用于SSR检测，引物3（v3.0）用于设计短寡核苷酸引物（18-20聚体）。总共鉴定了15,222个SSR，并针对这些基序设计了28,944个引物对。转录组具有413,890个SNP,频率为2.8个/kb。新发现的SSRs和SNP可作为遗传标记，用于未来的遗传多样性和遗传保护研究。
