Full-length enriched cDNA library construction from tissues related to energy metabolism in pigs.
Genome sequencing of the pig is being accelerated because of its importance as an evolutionary and biomedical model animal as well as a major livestock animal. However, information on expressed porcine genes is insufficient to allow annotation and use of the genomic information. A series of expressed sequence tags of 5' ends of five full-length enriched cDNA libraries (SUSFLECKs) were functionally characterized. SUSFLECKs were constructed from porcine abdominal fat, induced fat cells, loin muscle, liver, and pituitary gland, and were composed of non-normalized and normalized libraries. A total of 55,658 ESTs that were sequenced once from the 5' ends of clones were produced and assembled into 17,684 unique sequences with 7,736 contigs and 9,948 singletons. In Gene Ontology analysis, two significant biological process leaf nodes were found: gluconeogenesis and translation elongation. In functional domain analysis based on the Pfam database, the beta transducin repeat domain of WD40 protein was the most frequently occurring domain. Twelve genes, including SLC25A6, EEF1G, EEF1A1, COX1, ACTA1, SLA, and ANXA2, were significantly more abundant in fat tissues than in loin muscle, liver, and pituitary gland in the SUSFLECKs. These characteristics of SUSFLECKs determined by EST analysis can provide important insight to discover the functional pathways in gene networks and to expand our understanding of energy metabolism in the pig.
Lee
Kyung-Tai
KT
Division of Animal Genomics and Bioinformatics, National Institute of Animal Science, Rural Development Administration, Suwon 441-707, Korea.
Byun
Mi-Jeong
MJ
Lim
Dajeong
D
Kang
Kyung-Soo
KS
Kim
Nam-Soon
NS
Oh
Jung-Hwa
JH
Chung
Chung-Soo
CS
Park
Hae-Suk
HS
Shin
Younhee
Y
Kim
Tae-Hun
TH
D000199:Actins / Q000235:genetics / Q000378:metabolism; D033781:Adenine Nucleotide Translocator 3 / Q000235:genetics / Q000378:metabolism; D000273:Adipose Tissue / Q000378:metabolism*; D000818:Animals; D002478:Cells, Cultured; D003599:Cytoskeleton / Q000235:genetics; D004734:Energy Metabolism / Q000235:genetics; D020869:Gene Expression Profiling; D015723:Gene Library; D057026:Induced Pluripotent Stem Cells / Q000378:metabolism / Q000473:pathology; D008099:Liver / Q000378:metabolism*; D008930:Mitochondria, Liver / Q000235:genetics / Q000378:metabolism*; D014176:Protein Biosynthesis / Q000235:genetics; D016415:Sequence Alignment; D013552:Swine / Q000235:genetics*
D000199:Actins; D033781:Adenine Nucleotide Translocator 3