Maize chromosomal knobs are located in gene-dense areas and suppress local recombination

Chromosoma

Volumn 122, Issue 1-2, 2013, Pages 67-75

  Ghaffari, Rashin ^a   Cannon, Ethalinda K S ^b   Kanizay, Lisa B ^a   Lawrence, Carolyn J ^b,c   Dawe, R Kelly ^a  

^a UNIVERSITY OF GEORGIA   (United States)

^b IOWA STATE UNIVERSITY   (United States)

^c AGRICULTURAL RESEARCH SERVICE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CHROMOSOME KNOB; CHROMOSOME STRUCTURE; CONTROLLED STUDY; CROSSING OVER; FLUORESCENCE IN SITU HYBRIDIZATION; GENE LINKAGE DISEQUILIBRIUM; GENE MAPPING; GENE SEQUENCE; GENETIC RECOMBINATION; GENETIC STRAIN; INBRED STRAIN; MAIZE; NONHUMAN; PLANT CHROMOSOME; PLANT GENE; PLANT GENOME;

CHROMOSOMES, PLANT; DNA, PLANT; HETEROCHROMATIN; IN SITU HYBRIDIZATION, FLUORESCENCE; RECOMBINATION, GENETIC; ZEA MAYS;

ZEA MAYS;

EID: 84876467721     PISSN: 00095915     EISSN: 14320886     Source Type: Journal    
DOI: 10.1007/s00412-012-0391-8     Document Type: Article

References (31)

1. Albert PS, Gao Z, Danilova TV, Birchler JA (2010) Diversity of chromosomal karyotypes in maize and its relatives. Cytogenet Genome Res 129:6-16
2. Ananiev EV, Phillips RL, Rines HW (1998) A knob-associated tandem repeat in maize capable of forming fold-back DNA segments: are chromosome knobs megatransposons? Proc Nat Acad Sci USA 95:10785-10790
3. Barrett JC, Fry B, Maller J, Daly MJ (2005) Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 21:263-265
4. Bradbury PJ, Zhang Z, Kroon DE, Casstevens TM, Ramdoss Y, Buckler ES (2007) TASSEL: software for association mapping of complex traits in diverse samples. Bioinformatics 23:2633-2635
5. Buckler ES, Phelps-Durr TL, Buckler CSK, Dawe RK, Doebley JF, Holtsford TP (1999) Meiotic drive of chromosomal knobs reshaped the maize genome. Genet 153:415-426
6. Charlesworth B, Sniegowski P, Stephan W (1994) The evoluationary dynamics of repetitive DNA in eukaryotes. Nature 371:215-220
7. Creighton HB, McClintock B (1931) A correlation of cytological and genetical crossing-over in Zea mays. Proc Natl Acad Sci USA 17:492-497
8. Dawe RK (2009) Maize centromeres and knobs (neocentromeres). In: Bennetzen JL, Hake S (eds) Handbook of maize: genetics and genomics. Springer, New York, pp 239-250
9. Dawe RK, Hiatt EN (2004) Plant neocentromeres: fast, focused, and driven. Chromosom Res 12:655-669
10. Fu HH, Zheng ZW, Dooner HK (2002) Recombination rates between adjacent genic and retrotransposon regions in maize vary by 2 orders of magnitude. Proc Nat Acad Sci USA 99:1082-1087
11. Gent JI, Dong Y, Jiang J, Dawe RK (2012) Strong epigenetic similarity between maize centromeric and pericentromeric regions at the level of small RNAs, DNA methylation and H3 chromatin modifications. Nucleic Acids Research 40
12. Gore MA, Chia JM, Elshire RJ, Sun Q, Ersoz ES et al (2009) A first-generation haplotype map of maize. Science 326:1115-1117
13. Hiatt EN, Kentner EK, Dawe RK (2002) Independently regulated neocentromere activity of two classes of tandem repeat arrays. Plant Cell 14:407-420
14. Kato A, Lamb J, Birchler J (2004) Chromosome painting using repetitive DNA sequences as probes for somatic chromosome identification in maize. Proc Nat Acad Sci USA 101:13554-13559
15. Kato YTA (1976) Cytological studies of maize (Zea mays L.) and teosinte (Zea mexicana Shrader Kuntze) in relation to thier origin and evolution. Massachusettes Agric Exp Station Bull 635:1-185
16. Kikudome GY (1959) Studies on the phenomenon of preferential segregation in maize. Genet 44:815-831
17. Lawrence CJ, Seigfried TE, Bass HW, Anderson LK (2006) Predicting chromosomal locations of genetically mapped loci in maize using the Morgan2McClintock Translator. Genet 172:2007-2009
18. McClintock B (1929) Chromosome morphology in Zea mays. Science 69:629
19. McClintock B (1987) Chromosome constitutions of Mexican and Guatemalan races of maize. In: Moore J (ed) Genes cells and organisms. Garland, New York, pp 395-406
20. McClintock B, Yamakake T, Blumenschein A (1981) Chromosome constitution of races of maize: its significance in the interpretation of relationships between races and varieties in the Americas. Colegio de Postgraduado pp, Chapingo, Mexico, p 521
21. McMullen MD, Kresovich S, Villeda HS, Bradbury P, Li H et al (2009) Genetic properties of the maize nested association mapping population. Science 325:737-740
22. Peacock WJ, Dennis ES, Rhoades MM, Pryor AJ (1981) Highly repeated DNA sequence limited to knob heterochromatin in maize. Proc Nat Acad Sci USA 78:4490-4494
23. Plohl M, Luchetti A, Mestrovic N, Mantovani B (2008) Satellite DNAs between selfishness and functionality: structure, genomics and evolution of tandem repeats in centromeric (hetero)chromatin. Gene 409:72-82
24. Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR et al (2007) PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81:559-575
25. Rhoades M (1952) Preferential segreagation in maize. Iowa State College Press, Ames, pp 66-82
26. Rhoades M, Dempsey E (1985) Structural heterogeneity of chromosome 10 in races of maize and teosinte. Alan R. Liss, Inc, New York, pp 1-18
27. Rhoades MM, Dempsey E (1966) Effect of abnormal chromosome 10 on preferential segregation and crossing over in maize. Genet 53:989-1020
28. Sandler L, Novitski E (1957) Meiotic drive as an evolutionary force. Am Nat 91:105-110
29. Sen TZ, Andorf CM, Schaeffer ML, Harper LC, Sparks ME, et al. (2009) MaizeGDB becomes 'sequence-centric'. Database-the Journal of Biological Databases and Curation
30. Wu Y, Close TJ, Lonardi S (2011) Accurate construction of consensus genetic maps via integer linear programming. Ieee-Acm Trans On Comput Biol And Bioinforma 8:381-394
31. Yao H, Zhou Q, Li J, Smith H, Yandeau M et al (2002) Molecular characterization of meiotic recombination across the 140-kb multigenic a1-sh2 interval of maize. Proc Nat Acad Sci USA 99:6157-6162