TY - JOUR
T1 - Discovery of eight novel divergent homologs expressed in cattle placenta
AU - Larson, Joshua H.
AU - Kumar, Charu G.
AU - Everts, Robin E.
AU - Green, Cheryl A.
AU - Everts-van Der Wind, Annelie
AU - Band, Mark R.
AU - Lewin, Harris A.
PY - 2006/5/16
Y1 - 2006/5/16
N2 - Ten divergent homologs were identified using a subtractive bioinformatic analysis of 12,614 cattle placenta expressed sequence tags followed by comparative, evolutionary, and gene expression studies. Among the 10 divergent homologs, 8 have not been identified previously. These were named as follows: cattle cerebrum and skeletal muscle-specific transcript 1 (CSSMST1), cattle intestine-specific transcript 1 (CIST1), hepatitis A virus cellular receptor 1 amino-terminal domain-containing protein (HAVCRNDP), prolactin-related proteins 8, 9, and 11 (PRP8, PRP9, and PRP11, respectively) and secreted and transmembrane protein 1A and 1B (SECTM1A and SECTM1B, respectively). In addition, two previously known divergent genes were identified, trophoblast Kunitz domain protein 1 (TKDP1) and a new splice variant of TKDP4. Nucleotide substitution analysis provided evidence for positive selection in members of the PRP gene family, SECTM1A and SECTM1B. Gene expression profiles, motif predictions, and annotations of homologous sequences indicate immunological and reproductive functions of the divergent homologs. The genes identified in this study are thus of evolutionary and physiological importance and may have a role in placental adaptations.
AB - Ten divergent homologs were identified using a subtractive bioinformatic analysis of 12,614 cattle placenta expressed sequence tags followed by comparative, evolutionary, and gene expression studies. Among the 10 divergent homologs, 8 have not been identified previously. These were named as follows: cattle cerebrum and skeletal muscle-specific transcript 1 (CSSMST1), cattle intestine-specific transcript 1 (CIST1), hepatitis A virus cellular receptor 1 amino-terminal domain-containing protein (HAVCRNDP), prolactin-related proteins 8, 9, and 11 (PRP8, PRP9, and PRP11, respectively) and secreted and transmembrane protein 1A and 1B (SECTM1A and SECTM1B, respectively). In addition, two previously known divergent genes were identified, trophoblast Kunitz domain protein 1 (TKDP1) and a new splice variant of TKDP4. Nucleotide substitution analysis provided evidence for positive selection in members of the PRP gene family, SECTM1A and SECTM1B. Gene expression profiles, motif predictions, and annotations of homologous sequences indicate immunological and reproductive functions of the divergent homologs. The genes identified in this study are thus of evolutionary and physiological importance and may have a role in placental adaptations.
KW - Bovine genome
KW - Comparative genomics
KW - Molecular evolution
UR - http://www.scopus.com/inward/record.url?scp=33646789780&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=33646789780&partnerID=8YFLogxK
U2 - 10.1152/physiolgenomics.00307.2005
DO - 10.1152/physiolgenomics.00307.2005
M3 - Article
C2 - 16554549
AN - SCOPUS:33646789780
SN - 1094-8341
VL - 25
SP - 405
EP - 413
JO - Physiological genomics
JF - Physiological genomics
IS - 3
ER -