Home LiteratureArticle Details
PMID: 16141333 Published · ppublish English Journal Article Research Support, U.S. Gov't, Non-P.H.S.

Comparative physical mapping links conservation of microsynteny to chromosome structure and recombination in grasses.

Bowers JE, Arias MA, Asher R, Avise JA, Ball RT, Brewer GA, Buss RW, Chen AH, Edwards TM, Estill JC, Exum HE, Goff VH, Herrick KL, Steele CL, Karunakaran S, Lafayette GK, Lemke C, Marler BS, Masters SL, McMillan JM, Nelson LK, Newsome GA, Nwakanma CC, Odeh RN, Phelps CA, Rarick EA, Rogers CJ, Ryan SP, Slaughter KA, Soderlund CA, Tang H, Wing RA, Paterson AH

Abstract

Nearly finished sequences for model organisms provide a foundation from which to explore genomic diversity among other taxonomic groups. We explore genome-wide microsynteny patterns between the rice sequence and two sorghum physical maps that integrate genetic markers, bacterial artificial chromosome (BAC) fingerprints, and BAC hybridization data. The sorghum maps largely tile a genomic component containing 41% of BACs but 80% of single-copy genes that shows conserved microsynteny with rice and partially tile a nonsyntenic component containing 46% of BACs but only 13% of single-copy genes. The remaining BACs are centromeric (4%) or unassigned (8%). The two genomic components correspond to cytologically discernible "euchromatin" and "heterochromatin." Gene and repetitive DNA distributions support this classification. Greater microcolinearity in recombinogenic (euchromatic) than nonrecombinogenic (heterochromatic) regions is consistent with the hypothesis that genomic rearrangements are usually deleterious, thus more likely to persist in nonrecombinogenic regions by virtue of Muller's ratchet. Interchromosomal centromeric rearrangements may have fostered diploidization of a polyploid cereal progenitor. Model plant sequences better guide studies of related genomes in recombinogenic than nonrecombinogenic regions. Bridging of 35 physical gaps in the rice sequence by sorghum BAC contigs illustrates reciprocal benefits of comparative approaches that extend at least across the cereals and perhaps beyond.

MeSH Terms
Base Sequence Chromosome Structures Euchromatin Genome, Plant Heterochromatin Molecular Sequence Data Oryza/genetics Physical Chromosome Mapping/methods Poaceae/genetics Recombination, Genetic Sorghum/genetics Synteny
Chemicals
Euchromatin Heterochromatin
Authors & Affiliations
33 authors, click to expand affiliations / ORCID
Bowers John E
Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA.
Arias Miguel A
Asher Rochelle
Avise Jennifer A
Ball Robert T
Brewer Gene A
Buss Ryan W
Chen Amy H
Edwards Thomas M
Estill James C
Exum Heather E
Goff Valorie H
Herrick Kristen L
Steele Cassie L James
Karunakaran Santhosh
Lafayette Gmerice K
Lemke Cornelia
Marler Barry S
Masters Shelley L
McMillan Joana M
Nelson Lisa K
Newsome Graham A
Nwakanma Chike C
Odeh Rosana N
Phelps Cynthia A
Rarick Elizabeth A
Rogers Carl J
Ryan Sean P
Slaughter Keimun A
Soderlund Carol A
Tang Haibao
Wing Rod A
Paterson Andrew H
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
Published
2005-09-13
Epub
2005-00-02
Pages
13206-11
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC1201573
Subset
IM
Databases
GENBANK
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