A cattle-human comparative map built with cattle BAC-ends and human genome sequence.
As a step toward the goal of adding the cattle genome to those available for multispecies comparative genome analysis, 40,224 cattle BAC clones were end-sequenced, yielding 60,547 sequences (BAC end sequences, BESs) after trimming with an average read length of 515 bp. Cattle BACs were anchored to the human and mouse genome sequences by BLASTN search, revealing 29.4% and 10.1% significant hits (E < e-5), respectively. More than 60% of all cattle BES hits in both the human and mouse genomes are located within known genes. In order to confirm in silico predictions of orthologyand their relative position on cattle chromosomes, 84 cattle BESs with similarity to sequences on HSA11 were mapped using a cattle-hamster radiation hybrid (RH) panel. Resulting RH maps of BTA15 and BTA29 cover approximately 85% of HSA11 sequence, revealing a complex patchwork shuffling of segments not explained by a simple translocation followed by internal rearrangements. Overlay of the mouse conserved syntenies onto HSA11 revealed that segmental boundaries appear to be conserved in all three species. The BAC clone-based comparative map provides a foundation for the evolutionary analysis of mammalian karyotypes and for sequencing of the cattle genome.
Larkin
Denis M
DM
Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, 61801 USA.
Everts-van der Wind
Annelie
A
Rebeiz
Mark
M
Schweitzer
Peter A
PA
Bachman
Sharon
S
Green
Cheryl
C
Wright
Chris L
CL
Campos
Edhilvia J
EJ
Benson
Leslie D
LD
Edwards
Jennifer
J
Liu
Lei
L
Osoegawa
Kazutoyo
K
Womack
James E
JE
de Jong
Pieter J
PJ
Lewin
Harris A
HA
D000818:Animals; D002417:Cattle; D022202:Chromosomes, Artificial, Bacterial / Q000235:genetics*; D017124:Conserved Sequence; D004269:DNA, Bacterial / Q000032:analysis; D005819:Genetic Markers; D015894:Genome, Human; D006801:Humans; D051379:Mice; D020161:Physical Chromosome Mapping / Q000379:methods; D011237:Predictive Value of Tests; D021101:Radiation Hybrid Mapping / Q000379:methods; D017422:Sequence Analysis, DNA / Q000379:methods; D012984:Software; D026801:Synteny
D004269:DNA, Bacterial; D005819:Genetic Markers