Construction and characterization of a half million clone BAC library of durum wheat (Triticum turgidum ssp. durum)

Theoretical and Applied Genetics

Volumn 107, Issue 5, 2003, Pages 931-939

  Cenci, A ^a,c   Chantret, N ^a,d   Kong, X ^b   Gu, Y ^b   Anderson, O D ^b   Fahima, T ^a,e   Distelfeld, A ^a   Dubcovsky, J ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b WESTERN REGIONAL RESEARCH CENTER   (United States)

^c UNIVERSITY OF BARI   (Italy)

^d CIRAD   (France)

^e UNIVERSITY OF HAIFA   (Israel)

Author keywords

BAC; Genomic library; Polyploid; Triticum durum; Wheat

Indexed keywords

BIOSYNTHESIS; CHROMOSOMES; CROPS;

BACTERIAL ARTIFICIAL CHROMOSOME (BAC);

CLONING;

CHROMOSOMES, ARTIFICIAL, BACTERIAL; CHROMOSOMES, PLANT; CLONING, MOLECULAR; GENE LIBRARY; GENOME, PLANT; PLOIDIES; TRITICUM;

BACTERIA (MICROORGANISMS); EMBRYOPHYTA; INSERTION SEQUENCES; TRITICUM; TRITICUM AESTIVUM; TRITICUM TURGIDUM SUBSP. DURUM;

EID: 0141942053     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-003-1331-z     Document Type: Article

References (58)

1. Anderson OD, Greene FC (1997) The alpha-gliadin gene family.II. DNA and protein sequence variation, subfamily structure, and origins of pseudogenes. Theor Appl Genet 95:59-65
2. Andersen OD, Greene FC, Yip RE, Halford NG, Shewry PR, Malpica-Romero J-M (1989) Nucleotide sequences of the two high-molecular-weight glutenin genes from the D genome of hexaploid wheat, Triticum aestivum L. cv. Cheyenne. Nucleic Acids Res 17:461-462
3. Anderson OD, AbrahamPierce FA, Tam A (1998) Conservation in wheat high-molecular-weight glutenin gene promoter sequences: comparisons among loci and among alleles of the Glu-B1-1 locus. Theor Appl Genet 96:568-576
4. Arumuganathan K, Earle ED (1991) Nuclear DNA content of some important plant species. Plant Mol Biol Rep 9:208-218
5. Blanco A, Bellomo MP, Cenci A, DeGiovanni C, Dovidio R, Iacono E, Laddomada B, Pagnotta MA, Porceddu E, Sciancalepore A, Simeone R, Tanzarella OA (1998) A genetic linkage map of durum wheat. Theor Appl Genet 97:721-728
6. Burke DT, Carle GF, Olson MV (1987) Cloning of large segments of exogenous DNA into yeast by means of artificial chromosome vectors. Science 236:806-812
7. Cassidy BG, Dvorak J (1991) Molecular characterization of a low-molecular-weight glutenin cDNA clone from Triticum durum. Theor Appl Genet 81:653-660
8. Chen FQ, Foolad MR (1997) Molecular organization of a gene in barley which encodes a protein similar to aspartic protease and its specific expression in nucellar cells during degeneration. Plant Mol Biol 35:821-831
9. Chen M, SanMiguel P, Oliveira ACd, Woo S-S, Zhang H, Wing RA, Bennetzen JL (1997) Microcolinearity in sh2-homologous regions of the maize, rice, and sorghum genomes. Proc Natl Acad Sci USA 94:3431-3435
10. Choi S, Creelman RA, Mullet JE, Wing RA (1995) Construction and characterization of a bacterial artificial chromosome library of Arabidopsis thaliana. Plant Mol Biol Rep 13:124-128
11. Clarke L, Carbon J (1976) A colony bank containing synthetic ColE1 hybrid plasmids representative of the entire E. coli genome. Cell 9:91-100
12. Comai L, Tyagi AP, Winter K, Holmes-Davis R, Reynolds SH, Stevens Y, Byers B (2000) Phenotypic instability and rapid gene silencing in newly formed Arabidopsis allotetraploids. Plant Cell 12:1551-1567
13. Cregan PB, Mudge J, Fickus EW, Marek LF, Danesh D, Denny R, Shoemaker RC, Matthews BF, Jarvik T, Young ND (1999) Targeted isolation of simple sequence repeat markers through the use of bacterial artificial chromosomes. Theor Appl Genet 98:919-928
14. Dubcovsky J, Galvez AF, Dvorak J (1994) Comparison of the genetic organization of the early salt stress response gene system in salt-tolerant Lophopyrum elongatum and salt-sensitive wheat. Theor Appl Genet 87:957-964
15. Dubcovsky J, Ramakrishna W, SanMiguel P, Busso C, Yan L, Shiloff B, Bennetzen J (2001) Comparative sequence analysis of colinear barley and rice BACs. Plant Physiol 125:1342-1353
16. Dvorak J, Zhang HB (1990) Variation in repeated nucleotide sequences sheds light on the phylogeny of the wheat B and G genomes. Proc Natl Acad Sci USA 87:9640-9644
17. Dvorak J, McGuire PE, Cassidy B (1988) Apparent sources of the A genomes of wheats inferred from the polymorphism in abundance and restriction fragment length of repeated nucleotide sequences. Genome 30:680-689
18. Dvorak J, di Terlizzi P, Zhang HB, Resta P (1993) The evolution of polyploid wheats: identification of the A genome donor species. Genome 36:21-31
19. Forde BG, Heyworth A, Pywell J, Kreis M (1985) Nucleotide sequence of a B1 hordein gene and the identification of possible upstream regulatory elements in endosperm storage protein genes from barley, wheat and maize. Nucleic Acids Res 13:7327-7339
20. Gale MD, Atkinson MD, Chinoy CN, Harcourt RL, Jia J, Li QY, Devos KM (1995) Genetic maps of hexaploid wheat. In: Li ZS, Xin ZY (eds) Proc 8th Int Wheat Genetic Symp. China Agricultural Scientech Press, Beijing, pp 29-40
21. Gao M, Chibbar RN (2000) Isolation, characterization, and expression analysis of starch synthase IIa cDNA from wheat (Triticum aestivum L.). Genome 43:768-775
22. Huang S, Sirikhachornkit A, Su XJ, Faris J, Gill B, Haselkorn R, Gornicki P (2002) Genes encoding plastid acetyl-CoA carboxylase and 3-phosphoglycerate kinase of the Triticum/Aegilops complex and the evolutionary history of polyploid wheat. Proc Natl Acad Sci USA 99:8133-8138
23. Joppa LR, Williams ND (1988) Langdon durum disomic substitution lines and aneuploid analysis in tetraploid wheat. Genome 30:222-228
24. Joppa LR, Du C, Hart GE, Hareland GA (1997) Mapping a QTL for grain protein in tetraploid wheat (Triticum turgidum L.) using a population of recombinant inbred chromosome lines. Crop Sci 37:1586-1589
25. Khan IA, Procunier JD, Humphreys DG, Tranquilli G, Schlatter AR, Marcucci-Poltri S, Frohberg R, Dubcovsky J (2000) Development of PCR based markers for a high grain protein content gene from Triticum turgidum ssp. dicoccoides transferred to bread wheat. Crop Sci 40:518-524
26. Kihara H (1944) Discovery of the DD-analyser, one of the ancestors of Triticum vulgare. Agric Hortic 19:13-14
27. Li Z, Rahman S, Kosar-Hashemi B, Mouille G, Appels R, Morell MK (1999a) Cloning and characterization of a gene encoding wheat starch synthase I. Theor Appl Genet 98:1208-1216
28. Li ZY, Chu XS, Mouille G, Yan LL, Kosar-Hashemi B, Hey S, Napier J, Shewry P, Clarke B, Appels R, Morell MK, Rahman S (1999b) The localization and expression of the class II starch synthases of wheat. Plant Physiol 120:1147-1155
29. Lijavetzky D, Muzzi G, Wicker T, Keller B, Wing R, Dubcovsky J (1999) Construction and characterization of a bacterial artificial chromosome (BAC) library for the A genome of wheat. Genome 42:1176-1182
30. Liu YG, Nagaki K, Fujita M, Kawaura K, Uozumi M, Ogihara Y (2000) Development of an efficient maintenance and screening system for large-insert genomic DNA libraries of hexaploid wheat in a transformation-competent artificial chromosome (TAC) vector. Plant J 23:687-695
31. Luo MZ, Wang YH, Frisch D, Joobeur T, Wing RA, Dean RA (2001) Melon bacterial artificial chromosome (BAC) library construction using improved methods and identification of clones linked to the locus conferring resistance to melon Fusarium wilt (Fom-2). Genome 44:154-162
32. Ma Z, Weining S, Sharp PJ, Liu C (2000) Non-gridded library: a new approach for BAC (bacterial artificial chromosome) exploitation in hexaploid wheat (Triticum aestivum). Nucleic Acids Res 28:e106
33. Marra MA, Kucaba TA, Dietrich NL, Green ED, Brownstein B, Wilson RK, McDonald KM, LaHillier LW, McPherson JD, Waterston RH (1997) High throughput fingerprint analysis of large-insert clones. Genome Res 7:1072-1084
34. Morell MK, Rahman S, Regina A, Appels R, Li Z (2001) Wheat starch biosynthesis. Euphytica 119:55-58
35. Moullet O, Zhang H-B, Lagudah ES (1999) Construction and characterization of a large DNA insert library from the D genome of wheat. Theor Appl Genet 99:305-313
36. Nachit MM, Elouafi I, Pagnotta MA, El Saleh A, Iacono E, Labhilili M, Asbati A, Azrak M, Hazzam H, Benscher D, Khairallah M, Ribaut JM, Tanzarella OA, Porceddu E, Sorrells ME (2001) Molecular linkage map for an intraspecific recombinant inbred population of durum wheat (Triticum turgidum L. var. durum). Theor Appl Genet 102:177-186
37. Nair RB, Baga M, Scoles GJ, Kartha KK, Chibbar RN (1997) Isolation, characterization and expression analysis of a starch branching enzyme II cDNA from wheat. Plant Sci 122:153-163
38. Ogihara Y, Tsunewaki K (2000) Chinese Spring wheat (Triticum aestivum L.) chloroplast genome: complete sequence and contig clones. Yokohama City University and Fukui Prefetural University, Japan
39. Ozkan H, Levy AA, Feldman M (2001) Allopolyploidy-induced rapid genome evolution in the wheat (Aegilops-Triticum) group. Plant Cell 13:1735-1747
40. Panstruga R, Buschges R, Piffanelli P, Schulze-Lefert P (1998) A contiguous 60 kb genomic stretch from barley reveals molecular evidence for gene islands in a monocot genome. Nucleic Acids Res 26:1056-1062
41. Payne PI, Corfield KG, Holt LM, Blackman JA (1981) Correlations between the inheritance of certain high molecular weight subunits of glutenin and bread-making quality in progenies of six crosses of bread wheat. J Agric Sci 32:51-60
42. Peng MS, Hucl P, Chibbar RN (2001) Isolation, characterization and expression analysis of starch synthase I from wheat (Triticum aestivum L.). Plant Sci 161:1055-1062
43. Rahman S, Abrahams S, Abbott D, Mukai Y, Samuel M, Morell M, Appels R (1997) A complex arrangement of genes at a starch branching enzyme I locus in the D-genome donor of wheat. Genome 40:465-474
44. Rahman S, Li Z, Abrahams S, Abbott D, Appels R, Morell MK (1999) Characterisation of a gene encoding wheat endosperm starch branching enzyme-I. Theor Appl Genet 98:156-163
45. Rahman S, Regina A, Li ZY, Mukai Y, Yamamoto M, Kosar-Hashemi B, Abrahams S, Morell MK (2001) Comparison of starch-branching enzyme genes reveals evolutionary relationships among isoforms. Characterization of a gene for starch-branching enzyme IIa from the wheat D genome donor Aegilops tauschii. Plant Physiol 125:1314-1324
46. Sabelli PA, Shewry PR (1991) Characterization and organization of gene families at the Gli-1 loci of bread and durum wheats by restriction fragment analysis. Theor Appl Genet 83:209-216
47. SanMiguel P, Ramakrishna W, Bennetzen JL, Busso CS, Dubcovsky J (2002) Transposable elements, genes and recombination in a 215-kb contig from wheat chromosome 5A. Functional Integrative Genomics 2:70-80
48. Shaked H, Kashkush K, Ozkan H, Feldman M, Levy AA (2001) Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat. Plant Cell 13:1749-1759
49. Shizuya H, Birren B, Kim U-J, Mancino V, Slepak T, Tachiiri Y, Simon M (1992) Cloning and stable maintenance of 300-kilobase-pair fragments of human DNA in Escherichia coli using an F-factor-based vector. Proc Natl Acad Sci USA 89:8794-8797
50. Singh NK, Donovan GR, Carpenter HC, Skerritt JH, Langridge P (1993) Isolation and characterization of wheat triticin cDNA revealing a lysine-rich repetitive domain. Plant Mol Biol 22:227-237
51. Soltis DE, Soltis PS (1995) The dynamic nature of polyploid genomes. Proc Natl Acad Sci USA 92:8089-8091
52. Tanksley SD, Ganal MW, Martin GB (1995) Chromosome landing: a paradigm for map-based gene cloning in plants with large genomes. Trends Genet 11:63-68
53. Tikhonov AP, SanMiguel PJ, Nakajima Y, Gorenstein NM, Bennetzen JL, Avramova Z (1999) Colinearity and its exceptions in orthologous Adh regions of maize and sorghum. Proc Natl Acad Sci USA 96:7409-7414
54. Tomkins JP, Yu Y, Miller-Smith H, Frisch DA, Woo SS, Wing RA (1999) A bacterial artificial chromosome library for sugarcane. Theor Appl Genet 99:419-424
55. Wendel JF (2000) Genome evolution in polyploids. Plant Mol Biol 42:225-249
56. Woo SS, Jiang J, Gill BS, Paterson AH, Wing RA (1994) Construction and characterization of a bacterial artificial chromosome library of Sorghum bicolor. Nucleic Acids Res 22:4922-4931
57. Yu Y, Tomkins JP, Waugh R, Frisch DA, Kudrna D, Kleinhofs A, Brueggeman RS, Muehlbauer GJ, Wise RP, Wing RA (2000) A bacterial artificial chromosome library for barley (Hordeum vulgare L.) and the identification of clones containing putative resistance genes. Theor Appl Genet 101:1093-1099
58. Zhang H-B, Choi S, Woo SS, Li Z, Wing RA (1996) Construction and characterization of two rice bacterial artificial chromosome libraries from the parents of a permanent recombinant inbred mapping population. Mol Breed 2:11-24