Christie Andrew E, Roncalli Vittoria, Cieslak Matthew C, Pascual Micah G, Yu Andy, Lameyer Tess J, Stanhope Meredith E, Dickinson Patsy S
Békésy Laboratory of Neurobiology, Pacific Biosciences Research Center, School of Ocean and Earth Science and Technology, University of Hawaii at Manoa, 1993 East-West Road, Honolulu, HI 96822, USA.
Békésy Laboratory of Neurobiology, Pacific Biosciences Research Center, School of Ocean and Earth Science and Technology, University of Hawaii at Manoa, 1993 East-West Road, Honolulu, HI 96822, USA.
Gen Comp Endocrinol. 2017 Mar 1;243:96-119. doi: 10.1016/j.ygcen.2016.11.001. Epub 2016 Nov 5.
In silico transcriptome mining is a powerful tool for crustacean peptidome prediction. Using homology-based BLAST searches and a simple bioinformatics workflow, large peptidomes have recently been predicted for a variety of crustaceans, including the lobster, Homarus americanus. Interestingly, no in silico studies have been conducted on the eyestalk ganglia (lamina ganglionaris, medulla externa, medulla interna and medulla terminalis) of the lobster, although the eyestalk is the location of a major neuroendocrine complex, i.e., the X-organ-sinus gland system. Here, an H. americanus eyestalk ganglia-specific transcriptome was produced using the de novo assembler Trinity. This transcriptome was generated from 130,973,220 Illumina reads and consists of 147,542 unique contigs. Eighty-nine neuropeptide-encoding transcripts were identified from this dataset, allowing for the deduction of 62 distinct pre/preprohormones. Two hundred sixty-two neuropeptides were predicted from this set of precursors; the peptides include members of the adipokinetic hormone-corazonin-like peptide, allatostatin A, allatostatin B, allatostatin C, bursicon α, CCHamide, corazonin, crustacean cardioactive peptide, crustacean hyperglycemic hormone (CHH), CHH precursor-related peptide, diuretic hormone 31, diuretic hormone 44, eclosion hormone, elevenin, FMRFamide-like peptide, glycoprotein hormone α2, glycoprotein hormone β5, GSEFLamide, intocin, leucokinin, molt-inhibiting hormone, myosuppressin, neuroparsin, neuropeptide F, orcokinin, orcomyotropin, pigment dispersing hormone, proctolin, pyrokinin, red pigment concentrating hormone, RYamide, short neuropeptide F, SIFamide, sulfakinin, tachykinin-related peptide and trissin families. The predicted peptides expand the H. americanus eyestalk ganglia neuropeptidome approximately 7-fold, and include 78 peptides new to the lobster. The transcriptome and predicted neuropeptidome described here provide new resources for investigating peptidergic signaling within/from the lobster eyestalk ganglia.
电子转录组挖掘是预测甲壳类动物肽组的强大工具。利用基于同源性的BLAST搜索和简单的生物信息学工作流程，最近已预测出包括龙虾美洲螯龙虾在内的多种甲壳类动物的大型肽组。有趣的是，尽管眼柄是主要神经内分泌复合体即X器官 - 窦腺系统的所在位置，但尚未对龙虾的眼柄神经节（神经纤维层、外髓、内髓和终髓）进行电子研究。在此，使用从头组装程序Trinity构建了美洲螯龙虾眼柄神经节特异性转录组。该转录组由130,973,220条Illumina读数生成，包含147,542个独特的重叠群。从该数据集中鉴定出89个编码神经肽的转录本，从而推导出62种不同的前体/前激素原。从这组前体中预测出262种神经肽；这些肽包括脂肪动激素 - 促心肽素样肽、抑咽侧体素A、抑咽侧体素B、抑咽侧体素C、鞣化激素α、CCH酰胺、促心肽素、甲壳类动物心脏活性肽、甲壳类动物高血糖激素（CHH）、CHH前体相关肽、利尿激素31、利尿激素44、蜕皮激素、十一肽、FMRF酰胺样肽、糖蛋白激素α2、糖蛋白激素β5、GSEFL酰胺、intocin、亮氨酸激肽、蜕皮抑制激素、肌肉抑制素、神经垂体素、神经肽F、orcokinin、orcokinin、色素分散激素、促肠肌肽、速激肽、红色素浓缩激素、RY酰胺、短神经肽F、SIF酰胺、磺基激肽、速激肽相关肽和trissin家族的成员。预测的肽使美洲螯龙虾眼柄神经节神经肽组扩大了约7倍，其中包括78种对龙虾来说是新发现的肽。这里描述的转录组和预测的神经肽组为研究龙虾眼柄神经节内/来自眼柄神经节的肽能信号传导提供了新的资源。
