An EST-based approach for identifying genes expressed in the intestine and gills of pre-smolt Atlantic salmon (Salmo salar) -: art. no. 171
An EST-based approach for identifying genes expressed in the intestine and gills of pre-smolt Atlantic salmon (Salmo salar) -: art. no. 171
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DOI：
10.1186/1471-2164-6-171
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发表时间：
2005-12-01
期刊：
影响因子：
4.4
通讯作者：
Hoyheim, B
中科院分区：
文献类型：
--
作者：
Hagen-Larsen, H;Laerdahl, JK;Hoyheim, B
背景：大西洋鲑鱼是一种重要的水产养殖物种，也是生物学上非常有趣的物种，因为它在淡水中产卵，并在成为小鲑鱼之前发育几个阶段，在这个阶段它会迁徙到海里觅食。栖息地的巨大变化要求鲑鱼在生理、形态和行为上做出改变，以适应新的环境。这些变化被称为parr-smolt转化或smoltification，并预先适应鲑鱼在海洋环境中的生存和生长。低渗透调节能力的发展对促进河流向海洋的过渡起着重要作用。发育变化背后的生理机制在很大程度上是未知的。了解转型过程对水产养殖业的未来至关重要。了解哪些基因在熏蒸过程之前表达是进一步研究的重要基础。结果：从大西洋鲑鱼鳃和肠道构建的两个cDNA文库中，共获得2974个独特序列，包括779个contigs和2195个singlets， accession number: CK877169-CK879929， CK884015-CK886537和CN181112-CN181464。近50%的序列被赋予了假定的功能，因为它们在一个或多个数据库中显示出与已知基因（主要来自其他物种）的相似性。Swiss-Prot数据库为1005个序列返回了重要的匹配结果。这些可以被指定为预测的基因产物，使用基因本体（GO）术语对分子功能、生物过程和/或细胞成分进行注释，采用注释转移程序。结论：本文构建了大西洋鲑鱼（Salmo salar）的两个cDNA文库，并对1005个在鳃和/或肠中表达的基因进行了EST测序、聚类和推测功能分配。
Background: The Atlantic salmon is an important aquaculture species and a very interesting species biologically, since it spawns in fresh water and develops through several stages before becoming a smolt, the stage at which it migrates to the sea to feed. The dramatic change of habitat requires physiological, morphological and behavioural changes to prepare the salmon for its new environment. These changes are called the parr-smolt transformation or smoltification, and pre-adapt the salmon for survival and growth in the marine environment. The development of hypo-osmotic regulatory ability plays an important part in facilitating the transition from rivers to the sea. The physiological mechanisms behind the developmental changes are largely unknown. An understanding of the transformation process will be vital to the future of the aquaculture industry. A knowledge of which genes are expressed prior to the smoltification process is an important basis for further studies.Results: In all, 2974 unique sequences, consisting of 779 contigs and 2195 singlets, were generated for Atlantic salmon from two cDNA libraries constructed from the gills and the intestine, accession numbers [Genbank: CK877169-CK879929, CK884015-CK886537 and CN181112-CN181464]. Nearly 50% of the sequences were assigned putative functions because they showed similarity to known genes, mostly from other species, in one or more of the databases used. The Swiss-Prot database returned significant hits for 1005 sequences. These could be assigned predicted gene products, and 967 were annotated using Gene Ontology (GO) terms for molecular function, biological process and/or cellular component, employing an annotation transfer procedure.Conclusion: This paper describes the construction of two cDNA libraries from pre-smolt Atlantic salmon (Salmo salar) and the subsequent EST sequencing, clustering and assigning of putative function to 1005 genes expressed in the gills and/or intestine.