Development and application of camelid molecular cytogenetic tools

Journal of Heredity

Volumn 105, Issue 6, 2014, Pages 858-869

  Avila, Felipe ^a   Das, Pranab J ^a   Kutzler, Michelle ^b   Owens, Elaine ^c   Perelman, Polina ^d,e   Rubes, Jiri ^f   Hornak, Miroslav ^f   Johnson, Warren E ^d   Raudsepp, Terje ^a  

^a OREGON STATE UNIVERSITY   (United States)

^b OREGON STATE UNIVERSITY   (United States)

^c TEXAS A AND M UNIVERSITY   (United States)

^d NATIONAL CANCER INSTITUTE   (United States)

^e INSTITUTE OF MOLECULAR AND CELLULAR BIOLOGY   (Russian Federation)

^f VETERINARY RESEARCH INSTITUTE   (Czech Republic)

Author keywords

alpaca; BAC library; cytogenetics; FISH; minute chromosome; translocation

Indexed keywords

BCL 2 ASSOCIATED ATHANOGENE 4; CDC42 BINDING PROTEIN KINASE BETA; CHROMOSOME 6 OPEN READING FRAME 211; FIBROBLAST GROWTH FACTOR RECEPTOR 2; LIM DOMAIN ONLY 3; MOLECULAR MARKER; NEUROFIBROMIN; ORGANIC ANION TRANSPORTER 10; TRANSCRIPTION FACTOR PAX3; UNCLASSIFIED DRUG; GENETIC MARKER;

ANIMAL CELL; ARTIODACTYLA; BACTERIAL ARTIFICIAL CHROMOSOME; CHROMOSOME ANALYSIS; CHROMOSOME MAP; CHROMOSOME PREPARATION; COMPARATIVE GENOMIC HYBRIDIZATION; CONFERENCE PAPER; CYTOGENETICS; EXPRESSED SEQUENCE TAG; FEMALE; FLUORESCENCE IN SITU HYBRIDIZATION; GENE; GENOME ANALYSIS; KARYOTYPE; KARYOTYPING; MAJOR HISTOCOMPATIBILITY COMPLEX; MALE; MOLECULAR GENETICS; MOLECULAR HYBRIDIZATION; NONHUMAN; SEX CHROMOSOME; ANIMAL; GENETIC MARKER; GENETICS; NEW WORLD CAMELID; PROCEDURES;

ANIMALS; CAMELIDS, NEW WORLD; CHROMOSOME MAPPING; CHROMOSOMES, ARTIFICIAL, BACTERIAL; COMPARATIVE GENOMIC HYBRIDIZATION; FEMALE; GENETIC MARKERS; IN SITU HYBRIDIZATION, FLUORESCENCE; KARYOTYPING; MALE; SEX CHROMOSOMES;

EID: 84910602490     PISSN: 00221503     EISSN: 14657333     Source Type: Journal    
DOI: 10.1093/jhered/ess067     Document Type: Conference Paper

References (60)

1. Arrighi FE, Hsu TC. 1971. Localization of heterochromatin in human chromosomes. Cytogenetics. 10:81-86.
2. Balmus G, Trifonov V A, Biltueva LS, O'Brien PC, Alkalaeva ES, Fu B, Skidmore JA, Allen T, Graphodatsky AS, Yang F, et al. 2007. Cross-species chromosome painting among camel, cattle, pig and human: further insights into the putati ve Cetartiodactyla ancestral karyotype. Chromosome Res. 15:499-515.
3. Becker SE, Thomas R, Trifonov VA, Wayne RK, Graphodatsky AS, Breen M. 2011. Anchoring the dog to its relatives reveals new evolutio nary breakpoints across 11 species of the Canidae and provides new clues for the role of B chromosomes. Chromosome Res. 19:685-708.
4. Bianchi NO, Larramendy ML, Bianchi MS, Cortes L. 1986. Karyological conservation in South American camelids. Experientia. 42:622-624.
5. Breen M. 2008. Canine cytogenetics-from band to basepair. Cytogenet Genome Res. 120:50-60.
6. Breen M, Bullerdiek J, Langford CF. 1999. The DAPI banded karyotype of the domestic dog (Canis familiaris) generated using chromosome-specific paint probes. Chromosome Res. 7:401-406.
7. Breen M, Hitte C, Lorentzen TD, Thomas R, Cadieu E, Sabacan L, Scott A, Evanno G, Parker HG, Kirkness EF, et al. 2004. An integrated 4249 marker FISH/RH map of the canine genome. BMC Genomics. 5:65.
8. Bunch TD, Foote WC, Maciulis A. 1985. Chromosome banding pattern homologies and NORs for the Bactrian camel, guanaco, and llama. J Hered. 76:115-118.
9. Capanna E, Civitelli MV, 1965. The chromosomes of three species of neotropical Camelidae. Mamm Chrom Newsl. 17:75-79.
10. Das PJ, Chowdhary BP, Raudsepp T. 2009. Characterization of the bovine pseudoautosomal region and comparison with sheep, goat, and other mammalian pseudoautoso mal regions. Cytogenet Genome Res. 126:139-147.
11. Davis BW, Raudsepp T, Pearks Wilkerson AJ, Agarwala R, Schäffer AA, Houck M, Chowdhary BP, Murphy WJ. 2009. A high-resolution cat radiatio n hybrid and integrated FISH mapping resource for phylogenomic studies across Felidae. Genomics. 93:299-304.
12. Di Berardino D, Nicodemo D, Coppola G, King AW, Ramunno L, Cosenza GF, Iannuzzi L, Di Meo GP, Balmus G, Rubes J. 2006. Cytogenetic characterization of alpaca (Lama pacos, fam. Camelidae) prometaphase chromosomes. Cytogenet Genome Res. 115:138-144.
13. Di Meo GP, Goldammer T, Perucatti A, Genualdo V, Iannuzzi A, Incarnato D, Rebl A, Di Berardino D, Iannuzzi L. 2011. Extended cytogenetic maps of sheep chromosome 1 and their cattle and river buffalo homoeologues: comparison with the OAR1 RH map and human ch romosomes 2, 3, 21 and 1q. Cytogenet Genome Res. 133:16-24.
14. Di Meo GP, Perucatti A, Floriot S, Hayes H, Schibler L, Incarnato D, Di Berardino D, Will iams J, Cribiu E, Eggen A, et al. 2008. An extended river buffalo (Bubalus bubalis, 2n = 50) cytogenetic map: assignment of 68 autosomal loci by FISH-mapping and R-banding and comparison with human chromosomes. Chromosome Res. 16:827-837.
15. Di Meo GP, Perucatti A, Floriot S, Hayes H, Schibler L, Rullo R, Incarnato D, Ferretti L, Cockett N, Cribiu E, et al. 2007. An advanced sheep (Ovis aries, 2n = 54) cytoge netic map and assignment of 88 new autosomal loci by fluorescence in situ hybridization and R-banding. Anim Genet. 38:233-240.
16. Drew ML, Meyers-Wallen VN, Acland GM, Guyer CL, Steinheimer DN. 1999. P resumptive Sry-negative XX sex reversal in a llama with multiple congenital anomalies. J Am Vet Med Assoc. 215:1134-1139.
17. Ducos A, Revay T, Kovacs A, Hidas A, Pinton A, Bonnet-Garnier A, Molteni L, Slota E, Switonski M, Arruga MV, et al. 2008. Cytogenetic screening of livestock populations in Europe: an overview. Cytogenet Genome Res. 120:26-41.
18. Fowler M. 1990. Twinning in llamas. Int Camelid J. 4:35-38.
19. Galibert F, Quignon P, Hitte C, André C. 2011. Toward understanding dog evolutionary and domestication history. C R Biol. 334:190-196.
20. Goldammer T, Brunne r RM, Rebl A, Wu CH, Nomura K, Hadfield T, Maddox JF, Cockett NE. 2009. Cytogenetic anchoring of radiation hybrid and virtual maps of sheep chromosome X and comparison of X chromosomes in sheep, cattle, and human. Chr omosome Res. 17:497-506.
21. Groeneveld LF, Lenstra JA, Eding H, Toro MA, Scherf B, Pilling D, Negrini R, Finlay EK, Jianlin H, Groeneveld E, et al. ; GLOBALDIV Consortium. 2010. Genetic d iversity in farm animals-A review. Anim Genet. 41 Suppl 1:6-31.
22. Gustafson AL, Tallmadge RL, Ramlachan N, Miller D, Bird H, Antczak DF, Raudsepp T, Chowdhary BP, Skow LC. 2003. An ordered BAC contig map of the equine major histocompatibility complex. Cytogenet Genome Res. 102:189-195.
23. Hinrichs K,Buoen LC,Ruth GR(1999) XX/XY chimerism and freemartinism in a female llama co-twin to a male. J Am Vet Med Assoc., 215, 1140-1141.
24. Hinrichs K, Horin SE, Buoen LC, Zhang TQ, Ruth GR. 1997. X-chromosome monosomy in an infertile female llama. J Am Vet Med Assoc. 210:1503-1504.
25. Horn S. 2012. Target enrichment via DNA hybridization capture. Methods Mol Biol. 840:177-188.
26. Hornak M, Hulinska P, Musilova P, Kubickova S, Rubes J. 2009. Investigation of chromosome aneuploidies in early porcine embryos using comparative genomic hybridization. Cytogenet Genome Res. 126:210-216.
27. Hsu TC, Benirschke K. 1967. An atlas of mammalian chromosomes. New York: Springer-Verlag. 1: folio 40.
28. Hsu TC, Benirschke K. 1974. An atlas of mammalian chromosomes. Berlin (Germany): Springer-Verlag. 1: folio 389.
29. Hungerford DA, Snyder RI. 1966. Chromosomes of European wolf (Canis lupus) and of a Bactrian camel (Camelus bactrianus). Mamm Chrom Newsl. 20:72.
30. ISCN. 1995. An international system for human cytogenetic nomenclature (1995). Basel (Switzerland): Karger.
31. Kadwell M, Fernandez M, Stanley HF, Baldi R, Wheeler JC, Rosadio R, Bruford MW. 2001. Genetic analysis reveals the wild ancestors of the llama a nd the alpaca. Proc Biol Sci. 268:2575-2584.
32. Koulischer L, Tijskens J, Mortelmans J. 1971. Mammalian cytogenetics. IV. The chromosomes of two male Camelidae: Camelus bactrianus and Lama vicugna. Acta Zool Pathol Antverp. 52:89-92.
33. Kubickova S, Cernohorska H, Musilova P, Rubes J. 2002. The use of laser microdissection for the preparation of chromosome-specific painting probes in farm animals. Chromosome Re s. 10:571-577.
34. Kulemzina AI, Trifonov VA, Perelman PL, Rubtsova NV, Volobuev V, Ferguson-Smith MA, Stanyon R, Yang F, Graphodatsky AS. 2009. Crossspecies chromosome painting in Cetartioda ctyla: reconstructing the karyotype evolution in key phylogenetic lineages. Chromosome Res. 17: 419-436.
35. Kulemzina AI, Yang F, Trifonov VA, Ryder OA, Ferguson-Smith MA, Graphodatsky AS. 2011. Chromo some painting in Tragulidae facilitates the reconstruction of Ruminantia ancestral karyotype. Chromosome Res. 19:531-539.
36. Lear TL, Bailey E. 2008. Equine clinical cytogenetics: the past and future. Cytogenet Genome Res. 120:42-49.
37. Lewin HA, Larkin DM, Pontius J, O'Brien SJ. 2009. Every genome sequence needs a good map. Genome Res. 19:1925-1928.
38. Mamanova L, Coffey AJ, Scott CE, Kozarewa I, Turner EH, Kumar A, Howard E, Shendure J, Turner DJ. 2010. Target-enrichment strategies for next-generation sequencing. Nat Methods. 7:111-118.
39. Raudsepp T, Chowdhary BP. 2008 a . FISH for mapping single copy genes. Methods Mol Biol. 422:31-49.
40. Raudsepp T, Chowdhary BP. 2008 b . The horse pseudoautosomal region (PAR): characterization and comparison with the human, chimp and mouse PARs. Cytogenet Genome Res. 121:102-109.
41. Raudsepp T, Chowdhary BP. 2011. Cytogenetics and chromosome maps. In: Rothschild MF, Ruvinsky A, editors. The genetics of the pig. Oxfordshire (UK): CABI Press. p. 134-178.
42. Raudsepp T, Das PJ, Avila F, Chowdhary BP. 2012. The pseudoautosomal region and sex chromosome aneuploidies in domestic species. Sex Dev. 6:72-83.
43. Raudsepp T, Gustafson-Seabury A, Durkin K, Wagner ML, Goh G, Seabury CM, Brinkmeyer-Langford C, Le e EJ, Agarwala R, Stallknecht-Rice E, et al. 2008. A 4,103 marker integrated physical and comparative map of the horse genome. Cytogenet Genome Res. 122:28-36.
44. Rens W,Fu B,O'Brien PC,Ferguson-Smith M(2006) Cross-species chromosome painting. Nat Protoc, 1, 783-790.
45. Ross MT, Grafham DV, Coffey AJ, Scherer S, McLay K, Muzny D, Platzer M, Howell GR, Burrows C, Bird CP, et al. 2005. The DNA sequence of the human X chromosome. Nature. 434:325-337.
46. Rubes J, Pinton A, Bonnet-Garnier A, Fillon V, Musilova P, Michalova K, Kubickova S, Ducos A, Yerle M. 2009. Fluorescence in situ hybridization applied to domestic animal cytogenetics. Cytogenet Genome Res. 126:34-48.
47. Scherthan H, Cremer T, Arnason U, Weier HU, Lima-de-Faria A, Frönicke L. 1 994. Comparative chromosome painting discloses homologous segments in distantly related mammals. Nat Genet. 6:342-347.
48. Seabright M. 1971. A rapid banding technique for human chromosomes. Lancet. 2:971-972.
49. Skaletsky H, Kuroda-Kawaguchi T, Minx PJ, Cordum HS, Hillier L, Brown LG, Repping S, Pyntikova T, Ali J, Bieri T, et al. 2003. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature. 423:825-837.
50. Stanley HF, Kadwell M, Wheeler JC. 1994. Molecular evolution of the family Camelidae: a mitochondrial DNA study. Proc Biol Sci. 256:1 - 6.
51. Taberlet P, Coissac E, Pansu J, Pompanon F. 2011. Conservation genetics of cattle, sheep, and goats. C R Biol. 334:247-254.
52. Taylor KM, Hungerford DA, Snyder RL, Ulmer FA Jr. 1968. Uniformity of kryotypes in the Camelidae. Cytogenetics. 7:8-15.
53. Telenius H, Carter NP, Bebb CE, Nordenskjöld M, Ponder BA, Tunnacliffe A. 1992. Degenerate oligonucleotide-primed PCR: general amplification of ta rget DNA by a single degenerate primer. Genomics. 13:718-725.
54. Tibary A. Reproductive disorders in alpacas and llamas. Proceedings of the 1st International Workshop on Camelid Genetics; 2008 Feb 22-24; Sco ttsdale, AZ:The Alpaca Research Foundation and The Alpaca Registry, Inc.
55. Vidal-Rioja L, Larramendy ML, Semorile L. 1989. Ag-NOR staining and in situ hybridization of rDNA in the chromosomes of the South American camelids. Genetica. 79:215-222.
56. Villagó mez DA, Parma P, Radi O, Di Meo G, Pinton A, Iannuzzi L, King WA. 2009. Classical and molecular cytogenetics of disorders of sex development in domestic animals. Cytogenet Genome Res. 126:110-131.
57. Villagó mez DA, Pinton A. 2008. Chromosomal abnormalities, meiotic behavior and fertility in domestic animals. Cytogenet Genome Res. 120:69-80.
58. Vujosevic´ M, Blagojevic´ J. 2004. B chromosomes in populations of mammals. Cytogenet Genome Res. 106:247-256.
59. Wilker CE, Meyers-Wallen VN, Schlafer DH, Dykes NL, Kovacs A, Ball BA. 1994. XX sex reversal in a llama. J Am Vet Med Assoc. 204:112-115.
60. Zhang QL, Dong CS, He JP, He XY, Fan RW, Geng JJ, Ren YH. 2005. Study on the chromosomal karyotype and G-banding of Alpacas (Lama pacos). Yi Chuan. 27:221-226.