Dataset Information

Proteomic analysis of the lake trout (Salvelinus namaycush)

ABSTRACT: Lake trout are used as bioindicators for toxics exposure in the Great Lakes ecosystem. However, there is no knowledge about lake trout proteome. Here we performed the first lake trout (Salvelinus namaycush) liver proteomics and searched the databases against (NCBI and UniProtKB) Salvelinus, Salmonidae, Actinopterygii and the more distant Danio rerio. In the NCBI search, we identified 4371 proteins in 1252 clusters. From these proteins, we found 2175 proteins in Actinopterygii 1253 in Salmonidae, 69 in Salvelinus and 901 in Danio rerio NCBI searches. In the UniProtKB search, we identified 2630 proteins in 1100 clusters. From these proteins, we found 317 in Actinopterygii, 1653 in Salmonidae, 37 in Salvelinus and 666 in Danio rerio UniProtKB searches. A similar outcome was also obtained from a technical replicate experiment. A large number of lake trout liver proteins were not in any Salvelinus databases, suggesting that lake trout liver proteins have homologues to some proteins from the Salmonidae family and Actinopterygii class, as well as to the species Danio rerio, a more highly studied Cypriniformes fish. Therefore, our study not only builds the first comprehensive lake trout protein database, but also establishes protein homology-based evolutionary relationships between the fish within their family and class, as well as distant-related fish (lake trout and zebrafish). In addition, this study opens the possibility of identifying evolutionary relationships (i.e. adaptive mutations) between various groups (i.e. zebrafish, Salmonidae, Salvelinus and lake trout) through evolutionary proteomics

INSTRUMENT(S): Xevo G2 Q-Tof

ORGANISM(S): Salvelinus Namaycush

TISSUE(S): Liver

SUBMITTER: Emmalyn Dupree

LAB HEAD: Costel C. Darie

PROVIDER: PXD011924 | Pride | 2019-10-10

REPOSITORIES: Pride

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			Action	DRS
	1555136627907cf4___ED_071118_002.pkl.export.F018979.mzid	Mzid
	1555136627907cf4___ED_071118_008.pkl.export.F018980.mzid	Mzid
	1555136627907cf4___ED_071118_014.pkl.export.F018981.mzid	Mzid
	1555136627907cf4___ED_071118_020.pkl.export.F018982.mzid	Mzid
	1555136627907cf4___ED_071118_026.pkl.export.F018983.mzid	Mzid

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Proteomic Analysis of the Lake Trout (Salvelinus namaycush) Liver Identifies Proteins from Evolutionarily Close and -Distant Fish Relatives.

Dupree Emmalyn J EJ Crimmins Bernard S BS Holsen Thomas M TM Darie Costel C CC

Proteomics 20191112 24

Lake trout are used as bioindicators for toxics exposure in the Great Lakes ecosystem. Here the first lake trout (Salvelinus namaycush) liver proteomics study is performed and searched against specific databases: (NCBI and UniProtKB) Salvelinus, Salmonidae, Actinopterygii, and Oncorhynchus mykiss, and the more distant relative, Danio rerio. In the biological replicate 1 (BR1), technical replicate 1 (TR1), (BR1TR1), a large number of lake trout liver proteins are not in the Salvelinus protein dat ...[more]

PMID: 31578773

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