Transcriptome analysis of the molting gland (Y-organ) from the blackback land crab, Gecarcinus lateralis
Transcriptome analysis of the molting gland (Y-organ) from the blackback land crab, Gecarcinus lateralis
复制标题
DOI：
10.1016/j.cbd.2015.11.003
复制
发表时间：
2016-03-01
影响因子：
3
通讯作者：
Mykles, Donald L.
中科院分区：
文献类型：
--
作者：
Das, Sunetra;Pitts, Natalie L.;Mykles, Donald L.
在十足类甲壳类动物中，节肢动物的类固醇激素或蜕皮类固醇调节蜕皮。这些激素是由一对被称为Y器官(Yo)的蜕皮腺合成和释放的。环核苷酸、mTOR和转化生长因子β/Smad信号通路介导了YO中依赖于蜕皮周期的相变。为了进一步确定与蜕皮调控相关的基因，从蜕皮间黑背蟹(Gecarcinus Lateralis)的三个生物重复中获得了Yo转录组。文库的Illumina测序产生了227,811,829个100碱基对(BP)的成对末端读数；在修剪后，90%的读数用于进一步分析。用三一软件重新组装修剪后的读数，产生288,673个重叠群，平均长度为872bp，中位数长度为1842bp。CD-HIT-EST减少了重叠群序列之间的冗余度，其输出构成了基线转录组数据库。使用Bowtie2，92%到93%的阅读被映射回转录组。使用BIAST、HMMER、TMHMM、SignalP和Trinotate对单个重叠群进行注释，从而指定了20%的重叠群。通过基因本体论(GO)和ICEGG正交学(1(0)分析)进行功能和途径注释；BLASTx命中的重叠群中分别有58%和44%被分配给GO和KO术语。基因表达谱类似于小龙虾Yo转录组数据库，每个重叠群的相对丰度在三个侧翼龙虾重复中高度相关。信号转导途径的同源基因被很好地表达，包括mTOR、转化生长因子β、环核苷酸、MAP激酶、钙、血管内皮生长因子、磷脂酰肌醇、ErbB、Wnt、Hedgehog、Jak-Seat和Notch途径。(C)2015 Elsevier Inc.保留所有权利。
In decapod crustaceans, arthropod steroid hormones or ecdysteroids regulate molting. These hormones are synthesized and released from a pair of molting glands called the Y-organs (YO). Cyclic nucleotide, mTOR, and TGF beta/Smad signaling pathways mediate molt cycle-dependent phase transitions in the YO. To further identify the genes involved in the regulation of molting, a YO transcriptome was generated from three biological replicates of intermolt blackback land crab, Gecarcinus lateralis. Illumina sequencing of cDNA libraries generated 227,811,829 100-base pair (bp) paired-end reads; following trimming, 90% of the reads were used for further analyses. The trimmed reads were assembled de novo using Trinity software to generate 288,673 contigs with a mean length of 872 bp and a median length of 1842 bp. Redundancy among contig sequences was reduced by CD-HIT-EST, and the output constituted the baseline transcriptome database. Using Bowtie2, 92% to 93% of the reads were mapped back to the transcriptome. Individual contigs were annotated using BIAST, HMMER, TMHMM, SignalP, and Trinotate, resulting in assignments of 20% of the contigs. Functional and pathway annotations were carried out via gene ontology (GO) and ICEGG orthology (1(0) analyses; 58% and 44% of the contigs with BLASTx hits were assigned to GO and KO terms, respectively. The gene expression profile was similar to a crayfish YO transcriptome database, and the relative abundance of each contig was highly correlated among the three G. lateralis replicates. Signal transduction pathway orthologs were well represented, including those in the mTOR, TGF beta, cyclic nucleotide, MAP kinase, calcium, VEGF, phosphatidylinositol, ErbB, Wnt, Hedgehog, Jak-SEAT, and Notch pathways. (C) 2015 Elsevier Inc All rights reserved.