Genetic diversity and population structure of common bean (Phaseolus vulgaris L.) landraces from the East African highlands

Theoretical and Applied Genetics

Volumn 120, Issue 1, 2009, Pages 1-12

  Asfaw, Asrat ^a   Blair, Matthew W ^b   Almekinders, Conny ^c  

^a Awassa Agricultural Research Center   (Ethiopia)

^b INTERNATIONAL CENTER FOR TROPICAL AGRICULTURE CIAT   (Colombia)

^c WAGENINGEN UNIVERSITY   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

BREEDING PROGRAM; COMMON BEANS; CROSS-BORDER; EAST AFRICANS; EASTERN AFRICA; ETHIOPIA; FARMING SYSTEM; GENE FLOWS; GENETIC DIVERGENCE; GENETIC DIVERSITY; GENOTYPING; GERMPLASMS; LANDRACES; MICROSATELLITE MARKERS; NATIONAL LEVEL; PHASEOLUS VULGARIS; PHENOTYPING; POPULATION STRUCTURES; SOCIAL NETWORKS;

BEHAVIORAL RESEARCH;

FLUORINE CONTAINING POLYMERS;

MICROSATELLITE DNA;

AFRICA; ARTICLE; BEAN; CROP; CROSS BREEDING; ECONOMICS; ETHIOPIA; GENETIC VARIABILITY; GENETICS; GENOTYPE; HISTOLOGY; HUMAN; KENYA; PLANT SEED; POPULATION GENETICS;

AFRICA, EASTERN; CROPS, AGRICULTURAL; CROSSES, GENETIC; ETHIOPIA; GENETIC VARIATION; GENETICS, POPULATION; GENOTYPE; HUMANS; KENYA; MICROSATELLITE REPEATS; PHASEOLUS; SEEDS;

PHASEOLUS VULGARIS;

EID: 70149089327     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-009-1154-7     Document Type: Article

References (47)

1. L Afanador S Hadley JD Kelly 1993 Adoption of a mini-prep DNA extraction method for RAPD marker analysis in common bean (Phaseolus vulgaris L.) Bean Improv Coop 36 10 11
2. Allen DJ, Edje OT (1990) Common bean in Africa farming system. In: Smithson JB (ed) 1990 Progress in improvement of common bean in Eastern and Southern Africa. Bean Research, vol 5. CIAT Africa Workshop Series No 20, p 32
3. VL Becerra P Gepts 1994 RFLP diversity of common bean (Phaseolus vulgaris) in its centers of origin Genome 37 256 263 10.1139/g94-036
4. S Beebe P Skroch J Tohme MC Duque F Pedraza J Nienhuis 2000 Structure of genetic diversity among common bean landraces of Middle American origin based on correspondence analysis of RAPD Crop Sci 40 264 273
5. S Beebe J Rengifo E Gaitan-Solis MC Duque J Tohme 2001 Diversity and origin of Andean landraces of common bean Crop Sci 41 854 862
6. MW Blair F Pedraza H Buendía E Gaitán S Beebe P Gepts J Tohme 2003 Development of a genome wide anchored microsatellite map for common bean (Phaseolus vulgaris L.) Theor Appl Genet 107 1362 1374 10.1007/s00122-003- 1398-6 1:CAS:528:DC%2BD3sXovVOhu7g%3D 14504741 (Pubitemid 37496540)
7. MW Blair MC Giraldo HF Buendia E Tovar MC Duque S Beebe 2006 Microsatellite marker diversity in common bean (Phaseolus vulgaris L.) Theor Appl Genet 113 100 109 10.1007/s00122-006-0276-4 1:CAS:528:DC%2BD28XlvVGrur4%3D 16614831 (Pubitemid 43910105)
8. MW Blair JM Díaz R Hidalgo LM Díaz 2007 Microsatellite characterization of Andean races of common bean (Phaseolus vulgaris L.) Theor Appl Genet 116 29 43 10.1007/s00122-007-0644-8 1:CAS:528:DC%2BD2sXhtlClsrnL 17924092 (Pubitemid 350159724)
9. MW Blair LM Díaz HF Buendía MC Duque 2009 Genetic diversity, seed size associations and population structure of a core collection of common beans (Phaseolus vulgaris L.) Theor Appl Genet 10.1007/s00122-009- 1064-8
10. WJ Broughton G Hernandez MW Blair SE Beebe P Gepts J Vanderleyden 2003 Beans (Phaseolus spp.)-model food legumes Plant Soil 252 55 128 10.1023/A:1024146710611 1:CAS:528:DC%2BD3sXksFWgurY%3D (Pubitemid 36878452)
11. CIAT (1987) Standard system for the evaluation of bean germplasm. Van Schoohoven A, Pastor C (Compilers). CIAT, Cali
12. CIAT (2005) Utilization of bean genetic diversity in Africa. Highlights of CIAT in Africa, no. 21. CIAT, Cali. http://www.ciat.cgiar.org
13. LM Díaz MW Blair 2006 Race structure within the Mesoamerican genepool of common bean (Phaseolus vulgaris L.) as determined by microsatellite markers Theor Appl Genet 114 143 154 10.1007/s00122-006-0417-9 17047911 (Pubitemid 44786542)
14. LA Durán MW Blair MC Giraldo R Macchiavelli E Prophete JC Nin JS Beaver 2005 Morphological and molecular characterization of common bean landraces and cultivars from the Caribbean Crop Sci 45 1320 1328
15. E Gaitán MC Duque K Edwards J Tohme 2002 Microsatellite repeats in common bean (Phaseolus vulgaris L.): isolation, characterization, and cross-species amplification in Phaseolus spp Crop Sci 42 2128 2136
16. Gao H, Williamson S, Bustamante CD (2007) An MCMC approach for Joint inference of population structure and inbreeding rates from multi-locus genotype Data. Genetics. http://cbsuapps.tc.cornell.edu/InStruct.aspx (online)
17. HS Gentry 1969 Origin of the common bean. Phaseolus vulgaris Econ Bot 23 55 69
18. Gepts P, Debouck D (1991) Origin, domestication and evolution of the common beans (Phaseolus vulgaris L.). In: Schoonhoven A, Voysest O (eds) Common beans: research for crop improvement. CAB International, Wallingford, pp 7-54
19. P Gepts T Osborn K Rashka F Bliss 1986 Phaseolin-protein variability in wild forms and landraces of the common bean (Phaseolus vulgaris) evidence for multiple centers of domestication Econ Bot 40 451 468 1:CAS:528: DyaL2sXhsFyksA%3D%3D
20. Goudet J (2001) FSTAT, a program to estimate and test gene diversities and fixation indices (Version 2.9.3). http://www.unil.ch/popgen/softwares/fstat. html
21. P Greenway 1945 The origin of some East Africa food plants East Afr Agric For J 10 177 180
22. Hillocks RJ, Madata CS, Chirwa R, Minja EM, Msolla S (2006) Phaseolus bean improvement in Tanzania, 1959-2005. Euphytica. doi: 10.1007/s10681-006- 9112-9 (Pubitemid 44386197)
23. FM Islam KE Basford RJ Reden AV Gonzalez PM Kroonenberg SE Beebe 2002 Genetic variability in cultivated common bean beyond the two major genepools Genet Resour Crop Evol 49 271 283 10.1023/A:1015567513005 (Pubitemid 34598332)
24. FM Islam S Beebe M Muñoz J Tohme RJ Redden KE Basford 2004 Using molecular markers to assess the effect of introgression on quantitative attributes of common bean in the Andean genepool Theor Appl Genet 108 243 252 10.1007/s00122-003-1437-3 14657984 (Pubitemid 38162206)
25. R Koenig P Gepts 1989 Allozyme diversity in wild Phaseolus vulgaris: further evidence for two mayor centers of genetic diversity Theor Appl Genet 78 809 817 10.1007/BF00266663
26. GB Martin MW Adams 1987 Landraces of Phaseolus vulgaris (Fabaceae) in northern Malawi. II. Generation and maintenance of variability Econ Bot 41 204 215
27. M Nei 1978 Estimation of average heterozygosity and genetic distance from a small number of individuals Genetics 89 583 590 17248844
28. Peakall R, Smouse PE (2007) GENALEX 6.1: genetic analysis in Excel. Population genetic software for teaching and research. Australian National University, Canberra. Available via http://www.anu.edu.au/BoZo/GenAlEx
29. R Peakall PE Smouse DR Huff 1995 Evolutionary implications of allozyme and RAPD variation in diploid populations of buffalograss Buchloe dactyloides Mol Ecol 4 135 147 10.1111/j.1365-294X.1995.tb00203.x 1:CAS:528: DyaK2MXls1CjsL0%3D
30. Perrier X, Jacquemoud-Collet JP (2006). DARwin software. Available from http://www.darwin.cirad.fr/darwin
31. Perrier X, Flori A, Bonnot F (2003) Data analysis methods. In: Hamon P, Seguin M, Perrier X, Glaszmann JC (eds) Genetic diversity of cultivated tropical plants. Enfield Science Publishers, Montpellier, pp 43-76
32. JK Pritchard M Stephens P Donnelly 2000 Inference of population structure using multilocus genotype data Genetics 155 945 959 1:STN:280: DC%2BD3cvislKrtA%3D%3D 10835412
33. AP Rodiño M Santalla AM De Ron SP Singh 2003 A core collection of common bean from the Iberian Peninsula Euphytica 131 165 175 10.1023/A:1023973309788 (Pubitemid 36738130)
34. AP Rodiño M Santalla MA González AM de Ron SP Singh 2006 Novel genetic variation in common bean from the Iberian Peninsula Crop Sci 46 2540 2546 10.2135/cropsci2006.02.0104 (Pubitemid 44963435)
35. Rohlf F (2002) NTSYS pc. Numerical Taxonomy System Exeter Publishing, Setauket
36. Rosenberg NA (2002) Distruct: a program for the graphical display of structure results. Available from http://www.cmb.usc.edu/noahr/distruct
37. SAS Institute (2003) SAS/STAT Users guide 9.1.3. SAS Institute, Cary
38. SP Singh P Gepts DG Debouck 1991 Races of common bean (Phaseolus vulgaris, Fabaceae) Econ Bot 45 379 396
39. SP Singh A Molina C Urrea P Gepts 1991 Genetic diversity in cultivated Phaseolus vulgaris. II. Marker-based analysis of morphological and agronomic traits Crop Sci 31 23 29 1:CAS:528:DyaK3MXhs1Okt7s%3D
40. SP Singh R Nodari P Gepts 1991 Genetic diversity in cultivated common bean: I. Allozymes Crop Sci 31 19 23 1:CAS:528:DyaK3MXhvVahsLo%3D
41. L Sperling 2001 The effect of the civil war on Rwanda's bean seed systems and unusual bean diversity Biodivers Conserv 10 989 1009 10.1023/A: 1016628310917 (Pubitemid 32665247)
42. HA Van Rheenen 1979 Diversity of food beans in Kenya Econ Bot 33 4 448 454
43. BS Weir CC Cockerham 1984 Estimating F-statistics for the analysis of population structure Evolution 38 1358 1370 10.2307/2408641
44. Wortmann CS, Kirkby RA, Eledu CA, Allen DJ (1998) Atlas of common bean (Phaseolus vulgalis L.) production in Africa. CIAT Pan-African Bean Research Alliance, vol 133
45. Yeh FY, Boyle R, Ye T, Mao Z (1997) POPGENE, the user-friendly shareware for population genetic analysis, version 1.31. Molecular Biology and Biotechnology Centre, University of Alberta, Alberta
46. K Yu J Park V Poysa P Gepts 2000 Integration of simple sequence repeat (SSR) markers into a molecular linkage map of common bean (Phaseolus vulgaris L.) J Hered 91 429 434 10.1093/jhered/91.6.429 1:CAS:528:DC%2BD3MXht1SrtL8%3D 11218079
47. X Zhang MW Blair S Wang 2008 Genetic diversity of Chinese common bean (Phaseolus vulgaris L.) landraces assessed with simple sequence repeat (SSR) markers Theor Appl Genet 117 629 640 10.1007/s00122-008-0807-2 1:CAS:528:DC%2BD1cXovFOnsbY%3D 18548226