Please use this identifier to cite or link to this item: https://ir.swu.ac.th/jspui/handle/123456789/14646
ชื่อเรื่อง: Predicted sub-populations in a marine shrimp proteome as revealed by combined EST and cDNA data from multiple Penaeus species
ผู้แต่ง: Leekitcharoenphon P.
Taweemuang U.
Palittapongarnpim P.
Kotewong R.
Supasiri T.
Sonthayanon B.
Keywords: Animalia
Artemia
Artemia franciscana
Caenorhabditis elegans
Carcinus maenas
Cladocera
Crustacea
Daphnia
Daphnia pulex
Decapoda (Crustacea)
Drosophila melanogaster
Fenneropenaeus chinensis
Hexapoda
Homarus americanus
Litopenaeus vannamei
Marsupenaeus japonicus
Penaeidae
Penaeus
Penaeus monodon
Siphonaptera (fleas)
วันที่เผยแพร่: 2010
บทคัดย่อ: Background. Many species of marine shrimp in the Family Penaeidae, viz. Penaeus (Litopenaeus) vannamei, Penaeus monodon, Penaeus (Fenneropenaeus) chinensis, and Penaeus (Marsupenaeus) japonicus, are animals of economic importance in the aquaculture industry. Yet information about their DNA and protein sequences is lacking. In order to predict their collective proteome, we combined over 270,000 available EST and cDNA sequences from the 4 shrimp species with all protein sequences of Drosophila melanogaster and Caenorhabditis elegans. EST data from 4 other crustaceans, the crab Carcinus maenas, the lobster Homarus americanus (Decapoda), the water flea Daphnia pulex, and the brine shrimp Artemia franciscana were also used. Findings. Similarity searches from EST collections of the 4 shrimp species matched 64% of the protein sequences of the fruit fly, but only 45% of nematode proteins, indicating that the shrimp proteome content is more similar to that of an insect than a nematode. Combined results with 4 additional non-shrimp crustaceans increased matching to 78% of fruit fly and 56% of nematode proteins, suggesting that present shrimp EST collections still lack sequences for many conserved crustacean proteins. Analysis of matching data revealed the presence of 4 EST groups from shrimp, namely sequences for proteins that are both fruit fly-like and nematode-like, fruit fly-like only, nematode-like only, and non-matching. Gene ontology profiles of proteins for the 3 matching EST groups were analyzed. For non-matching ESTs, a small fraction matched protein sequences from other species in the UniProt database, including other crustacean-specific proteins. Conclusions. Shrimp ESTs indicated that the shrimp proteome is comprised of sub-populations of proteins similar to those common to both insect and nematode models, those present specifically in either model, or neither. Combining small EST collections from related species to compensate for their small size allowed prediction of conserved expressed protein components encoded by their uncharacterized genomes. The organized data should be useful for transferring annotation data from model species into shrimp data and for further studies on shrimp proteins with particular functions or groups. © 2010 Sonthayanon et al; licensee BioMed Central Ltd.
URI: https://ir.swu.ac.th/jspui/handle/123456789/14646
https://www.scopus.com/inward/record.uri?eid=2-s2.0-78149347750&doi=10.1186%2f1756-0500-3-295&partnerID=40&md5=dbc4059783dc7cc0d8e27d3c04882ffb
ISSN: 17560500
Appears in Collections:Scopus 1983-2021

Files in This Item:
There are no files associated with this item.


Items in SWU repository are protected by copyright, with all rights reserved, unless otherwise indicated.