Centromere positions in chicken and Japanese quail chromosomes: De novo centromere formation versus pericentric inversions

Chromosome Research

Volumn 20, Issue 8, 2012, Pages 1017-1032

  Zlotina, Anna ^a   Galkina, Svetlana ^a   Krasikova, Alla ^a   Crooijmans, Richard P M A ^b   Groenen, Martien A M ^b   Gaginskaya, Elena ^a   Deryusheva, Svetlana ^a,c  

^a ST PETERSBURG STATE UNIVERSITY   (Russian Federation)

^b WAGENINGEN UNIVERSITY   (Netherlands)

^c GEOPHYSICAL LABORATORY   (United States)

Author keywords

Chicken; Evolutionary new centromere; Fluorescent in situ hybridization (FISH); Japanese quail; Lampbrush chromosome (LBC); Pericentric inversion

Indexed keywords

ANIMAL CELL; ARTICLE; CENTROMERE; CHICKEN; CHROMOSOME STRUCTURE; COTURNIX JAPONICA; FLUORESCENCE IN SITU HYBRIDIZATION; GENE MAPPING; HETEROCHROMATIN; IMMUNODETECTION; KARYOTYPE EVOLUTION; MICROCHROMOSOME; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; OOCYTE; PERICENTRIC CHROMOSOME INVERSION; PRIORITY JOURNAL;

ANIMALS; CENTROMERE; CHICKENS; CHROMOSOME INVERSION; CHROMOSOME MAPPING; CHROMOSOMES; COTURNIX; FLUORESCENT ANTIBODY TECHNIQUE; HETEROCHROMATIN; IN SITU HYBRIDIZATION, FLUORESCENCE; KARYOTYPING;

COTURNIX JAPONICA; GALLUS GALLUS; PHASIANIDAE;

EID: 84877582650     PISSN: 09673849     EISSN: 15736849     Source Type: Journal    
DOI: 10.1007/s10577-012-9319-7     Document Type: Article

References (64)

1. Adega F, Guedes-Pinto H, Chaves R (2009) Satellite DNA in the karyotype evolution of domestic animals-clinical considerations. Cytogenet Genome Res 126:12-20
2. Amor DJ, Bentley K, Ryan J et al (2004) Human centromere repositioning "in progress". Proc Natl Acad Sci USA 101:6542-6547
3. Calderón PL, Pigozzi MI (2006) MLH1-focus mapping in birds shows equal recombination between sexes and diversity of crossover patterns. Chromosome Res 14:605-612 (Pubitemid 44386273)
4. Callan HG (1986) Lampbrush chromosomes. Mol Biol Biochem Biophys 36:1-254
5. Crooijmans RPMA, Vrebalov J, Dijkhof RJ et al (2000) Twodimensional screening of the Wageningen chicken BAC library. Mamm Genome 11:360-363 (Pubitemid 30230463)
6. Dalloul RA, Long JA, Zimin AV et al (2010) Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis. PLoS Biol 8:e1000475
7. Derjusheva S, Kurganova A, Habermann F, Gaginskaya E (2004) High chromosome conservation detected by comparative chromosome painting in chicken, pigeon and passerine birds. Chromosome Res 12:715-723 (Pubitemid 41217415)
8. Deryusheva S, Krasikova A, Kulikova T, Gaginskaya E (2007) Tandem 41-bp repeats in chicken and Japanese quail genomes: FISH mapping and transcription analysis on lampbrush chromosomes. Chromosoma 116:519-530 (Pubitemid 350120988)
9. Gaginskaya E, Kulikova T, Krasikova A (2009) Avian lampbrush chromosomes: a powerful tool for exploration of genome expression. Cytogenet Genome Res 124:251-267
10. Galkina S, Deryusheva S, Fillon V et al (2006) FISH on avian lampbrush chromosomes produces higher resolution gene mapping. Genetica 128:241-251 (Pubitemid 44544117)
11. Griffin DK, Haberman F, Masabanda J et al (1999) Micro- and macrochromosome paints generated by flow cytometry and microdissection: tools for mapping the chicken genome. Cytogenet Cell Genet 87:278-281 (Pubitemid 30103116)
12. Griffin DK, Robertson LBW, Tempest HG, Skinner BM (2007) The evolution of the avian genome as revealed by comparative molecular cytogenetics. Cytogenet Genome Res 117:64-77 (Pubitemid 47202666)
13. Griffin DK, Robertson LB, Tempest HG et al (2008) Whole genome comparative studies between chicken and turkey and their implications for avian genome evolution. BMC Genomics 9:168
14. Groenen MAM, Wahlberg P, Foglio M et al (2009) A high-density SNP-based linkage map of the chicken genome reveals sequence features correlated with recombination rate. Genome Res 19:510-519
15. Guttenbach M, Nanda I, Feichtinger W, Masabanda JS, Griffin DK, Schmid M (2003) Comparative chromosome painting of chicken autosomal paints 1-9 in nine different bird species. Cytogenet Genome Res 103:173-184 (Pubitemid 38401072)
16. Han Y, Zhang Z, Liu C et al (2009) Centromere repositioning in cucurbit species: implication of the genomic impact from centromere activation and inactivation. Proc Natl Acad Sci USA 106(35):14937-14941
17. Hori T, Suzuki Y, Solovei I et al (1996) Characterization of DNA sequence constituting the terminal heterochromatin of the chicken Z chromosome. Chromosome Res 4:411-426 (Pubitemid 26329265)
18. Itoh Y, Kampf K, Arnold AP (2011) Possible differences in the two Z chromosomes in male chickens and evolution of MHM sequences in Galliformes. Chromosoma 120:587-598
19. Kaelbling M, Fechheimer NS (1983) Synaptonemal complexes and the chromosomes of the domestic fowl, Gallus domesticus. Cytogenet Cell Genet 35:87-92 (Pubitemid 13070745)
20. Kasai F, Garcia C, Arruga MV, Ferguson-Smith MA (2003) Chromosome homology between chicken (Gallus gallus domesticus) and the red-legged partridge (Alectoris rufa); evidence of the occurrence of a neocentromere during evolution. Cytogenet Genome Res 102:326-330 (Pubitemid 38280918)
21. Kayang BB, Fillon V, Inoue-Murayama M et al (2006) Integrated maps in quail (Coturnix japonica) confirm the high degree of synteny conservation with chicken (Gallus gallus) despite 35 million years of divergence. BMC Genomics 7:101
22. Kemkemer C, Kohn M, Cooper DN et al (2009) Gene synteny comparisons between different vertebrates provide new insights into breakage and fusion events during mammalian karyotype evolution. MC Evol Biol 9:84
23. Krasikova A, Barbero JL, Gaginskaya E (2005) Cohesion proteins are present in centromere protein bodies associated with avian lampbrush chromosomes. Chromosome Res 13:675-685 (Pubitemid 41476504)
24. Krasikova A, Deryusheva S, Galkina S, Kurganova A, Evteev A, Gaginskaya E (2006) On the positions of centromeres in chicken lampbrush chromosomes. Chromosome Res 14:777-789 (Pubitemid 44787909)
25. Krasikova A, Daks A, Zlotina A, Gaginskaya E (2009) Polymorphic heterochromatic segments in Japanese quail microchromosomes. Cytogenet Genome Res 126:148-155
26. Krasikova A, Fukagawa T, Zlotina A (2012) High-resolution mapping and transcriptional activity analysis of chicken CENP-A-associated DNA sequences on giant lampbrush chromosomes. Chromosome Res (this issue)
27. Marshall OJ, Chueh AC, Wong LH, Choo KHA (2008) Neocentromeres: new insights into centromere structure, disease development, and karyotype evolution. Am J Hum Genet 82:261-282 (Pubitemid 351726108)
28. Masabanda JS, Burt DW, O'Brien PCM et al (2004) Molecular cytogenetic definition of the chicken genome: the first complete avian karyotype. Genetics 166:1367-1373 (Pubitemid 38507055)
29. Matzke MA, Virga F, Berger H et al (1990) A 41-42 bp tandemly repeated sequence isolated from nuclear envelopes of chicken erythrocytes is located predominantly on microchromosomes. Chromosoma 99:131-137 (Pubitemid 20172828)
30. Morgan GT (2002) Lampbrush chromosomes and associated bodies: new insights into principles of nuclear structure and function. Chromosome Res 10:177-200 (Pubitemid 34553493)
31. Murphy WJ, Larkin DM, van der Wind AE et al (2005) Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps. Science 309:613-617 (Pubitemid 41033645)
32. Nagaki K, Cheng Z, Ouyang S et al (2004) Sequencing of a rice centromere uncovers active genes. Nat Genet 36:138-145 (Pubitemid 38174371)
33. Nanda I, Schlegelmilch K, Haaf T, Schartl M, Schmid M (2008) Synteny conservation of the Z chromosome in 14 avian species (11 families) supports a role for Z dosage in aviansex determination. Cytogenet Genome Res 122:150-156
34. Ogawa A, Solovei I, Hutchison N et al (1997) Molecular characterization and cytological mapping of a non-repetitive DNA sequence region from the W chromosome of chicken and its use as a universal probe for sexing Carinatae birds. Chromosome Res 5:93-101 (Pubitemid 27182802)
35. O'Neill RJ, Eldridge MD, Metcalfe CJ (2004) Centromere dynamics and chromosome evolution in marsupials. J Hered 95:375-381 (Pubitemid 39304774)
36. Pevzner P, Tesler G (2003) Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution. Proc Natl Acad Sci USA 100:7672-7677 (Pubitemid 36760028)
37. Pichugin AM, Galkina SA, Potekhin AA, Punina EO, Rautian MS, Rodionov AV (2001) Determination of the minimum size of Gallus gallus domesticus chicken microchromosome by a pulse electrophoresis method. Genetika 37:657-660
38. Piras FM, Nergadze SG, Magnani E et al (2010) Uncoupling of satellite DNA and centromeric function in the genus Equus. PLoS Genet 6:e1000845
39. Rocchi M, Archidiacono N, Schempp W, Capozzi O, Stanyon R (2012) Centromere repositioning in mammals. Heredity 108:59-67
40. Ruiz-Herrera A, Castresana J, Robinson TJ (2006) Is mammalian chromosomal evolution driven by regions of genome fragility? Genome Biol 7:R115
41. Ryttman H, Tegelstrom H (1981) G-banded karyotypes of three Galliformes species, domestic fowl (Gallus domesticus), quail (Coturnix coturnix japonica), and turkey (Meleagris gallopavo). Hereditas 94:165-170 (Pubitemid 11075979)
42. Saifitdinova AF, Derjusheva SE, Malykh AG, Zhurov VG, Andreeva TF, Gaginskaya ER (2001) Centromeric tandem repeat from the chaffinch genome: isolation and molecular characterization. Genome 44:96-103 (Pubitemid 32247832)
43. Sasaki M (1981) High resolution G-band karyotypes of the domestic fowl and the Japanese quail. Chrom Inform Service 31:26-28
44. Sasazaki S, Hinenoya T, Lin B, Fujiwara A, Mannen H (2006) A comparative map of macrochromosomes between chicken and Japanese quail based on orthologous genes. Anim Genet 37:316-320 (Pubitemid 44091654)
45. Schmid M, Nanda I, Guttenbach M et al (2000) First report on chicken genes and chromosomes. Cytogenet Cell Genet 90:169-218 (Pubitemid 32010725)
46. Schmid M, Nanda I, Hoehn H et al (2005) Second report on chicken genes and chromosomes. Cytogenet Genome Res 109:415-479 (Pubitemid 40868681)
47. Shang WH, Hori T, Toyoda A et al (2010) Chickens possess centromeres with both extended tandem repeats and short non-tandem-repetitive sequences. Genome Res 20:1219-1228
48. Shibusawa M, Minai S, Nishida-Umehara C et al (2001) A comparative cytogenetic study of chromosome homology between chicken and Japanese quail. Cytogenet Cell Genet 95:103-109 (Pubitemid 34461835)
49. Shibusawa M, Nishida-Umehara C, Masabanda J, Griffin DK, Isobe T, Matsuda Y (2002) Chromosome rearrangements between chicken and guinea fowl defined by comparative chromosome painting and FISH mapping of DNA clones. Cytogenet Genome Res 98:225-230 (Pubitemid 37465021)
50. Shibusawa M, Nishibori M, Nishida-Umehara C et al (2004) Karyotypic evolution in the Galliformes: an examination of the process of karyotypic evolution by comparison of the molecular cytogenetic findings with the molecular phylogeny. Cytogenet Genome Res 106:111-119 (Pubitemid 38822789)
51. Skinner BM, Griffin DK (2011) Intrachromosomal rearrangements in avian genome evolution: evidence for regions prone to breakpoints. Heredity 108:37-41
52. Skinner BM, Robertson LBW, Tempest HG et al (2009) Comparative genomics in chicken and Pekin duck using FISH mapping and microarray analysis. BMC Genomics 10:357
53. Slamovits CH, Rossi MS (2002) Satellite DNA: agent of chromosomal evolution in mammals. A review. J Neotrop Mammal 9:297-308
54. Solinhac R, Leroux S, Galkina S et al (2010) Integrative mapping analysis of chicken microchromosome 16 organization. BMC Genomics 11:616
55. Solovei IV, Joffe BI, Gaginskaya ER, Macgregor HC (1996) Transcription on lampbrush chromosomes of a centromerically localized highly repeated DNA in pigeon (Columba) relates to sequence arrangement. Chromosome Res 4:588-603 (Pubitemid 27067456)
56. Solovei I, Ogawa A, Mitsuru N, Mizuno S, Macgregor H (1998) Specific chromomeres on the chicken W lampbrush chromosome contain specific repetitive DNA sequence families. Chromosome Res 6:323-327 (Pubitemid 28331966)
57. Stock AD, Bunch TD (1982) The evolutionary implications of chromosome banding pattern homologies in the bird order Galliformes. Cytogenet Cell Genet 34:136-148 (Pubitemid 13208256)
58. Tanaka K, Suzuki T, Nojiri T, Yamagata T, Namikawa T, Matsuda Y (2000) Characterization and chromosomal distribution of a novel satellite DNA sequence of Japanese quail (Coturnix coturnix japonica). J Hered 91:412-415
59. Telenius H, Pelmear AH, Tunnacliffe A et al (1992) Cytogenetic analysis by chromosome painting using DOP-PCR amplified flow-sorted chromosomes. Genes Chromosome Cancer 4:257-263
60. van Tuinen M, Dyke GJ (2004) Calibration of galliform molecular clocks using multiple fossils and genetic partitions. Mol Phylogenet Evol 30:74-86 (Pubitemid 38092519)
61. Völker M, Backström N, Skinner BM et al (2010) Copy number variation, chromosome rearrangement, and their association with recombination during avian evolution. Genome Res 20:503-511
62. Wang X, Li J, Leung FC (2002) Partially inverted tandem repeat isolated from pericentric region of chicken chromosome 8. Chromosome Res 10:73-82 (Pubitemid 34121873)
63. Zhang Y, Zhang X, O'Hare TH et al (2011) A comparative physical map reveals the pattern of chromosomal evolution between the turkey (Meleagris gallopavo) and chicken (Gallus gallus) genomes. BMC Genomics 12:447
64. Zlotina A, Galkina S, Krasikova A et al (2010) Precise centromere positioning on chicken chromosome 3. Cytogenet Genome Res 129:310-313