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Genetic variation, Heritability estimates and GXE effects on yield traits of Mesoamerican common bean (Phaseolus vulgaris L) germplasm in Uganda

Published online by Cambridge University Press:  16 October 2017

Dennis Okii ,
Clare Mukankusi ,
Sulaiman Sebuliba ,
Phinehas Tukamuhabwa ,
Geoffrey Tusiime ,
Herbert Talwana ,
Thomas Odong ,
Annet Namayanja ,
Pamela Paparu  and
Stanley Nkalubo
...Show all authors
Dennis Okii*
Affiliation:
International Centre for Tropical Agriculture (CIAT)/Pan African Bean Research Alliance (PABRA), P.O. Box 6247, Kampala, Uganda Department of Agricultural Production, Makerere University, P.O. Box 7062, Kampala, Uganda
Clare Mukankusi
Affiliation:
International Centre for Tropical Agriculture (CIAT)/Pan African Bean Research Alliance (PABRA), P.O. Box 6247, Kampala, Uganda
Sulaiman Sebuliba
Affiliation:
International Centre for Tropical Agriculture (CIAT)/Pan African Bean Research Alliance (PABRA), P.O. Box 6247, Kampala, Uganda
Phinehas Tukamuhabwa
Affiliation:
Department of Agricultural Production, Makerere University, P.O. Box 7062, Kampala, Uganda
Geoffrey Tusiime
Affiliation:
Department of Agricultural Production, Makerere University, P.O. Box 7062, Kampala, Uganda
Herbert Talwana
Affiliation:
Department of Agricultural Production, Makerere University, P.O. Box 7062, Kampala, Uganda
Thomas Odong
Affiliation:
Department of Agricultural Production, Makerere University, P.O. Box 7062, Kampala, Uganda
Annet Namayanja
Affiliation:
National Agricultural Research Organisation (NARO), National Crops Resources Research Institute, Namulonge, Legumes program, P.O. Box 7081, Kampala, Uganda
Pamela Paparu
Affiliation:
National Agricultural Research Organisation (NARO), National Crops Resources Research Institute, Namulonge, Legumes program, P.O. Box 7081, Kampala, Uganda
Stanley Nkalubo
Affiliation:
National Agricultural Research Organisation (NARO), National Crops Resources Research Institute, Namulonge, Legumes program, P.O. Box 7081, Kampala, Uganda
Michael Otim
Affiliation:
National Agricultural Research Organisation (NARO), National Crops Resources Research Institute, Namulonge, Legumes program, P.O. Box 7081, Kampala, Uganda
Michael Ugen
Affiliation:
National Agricultural Research Organisation (NARO), National Semi Arid Resources Research Institute (NaSARRI), Serere, P.O. Box Soroti, Uganda
Stephen Buah
Affiliation:
National Agricultural Research Organisation (NARO), National Agricultural Research Laboratories, NARL, P.O. Box 7065, Kampala, Uganda
Paul Gepts
Affiliation:
Department of Plant Sciences/MS1, University of California, Section of Crop and Ecosystem Sciences, 1 Shields Avenue, Davis, CA 95616-8780, USA
*
*Corresponding author. E-mail: dokii@caes.mak.ac.ug
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Abstract

Germplasm of common beans from the Mesoamerican gene pool races: Durango, Jalisco, Mesoamerica and Guatemala have highest genetic variation for the crop's improvement. The objective was to assign 50 common bean germplasm in Uganda into its gene pool races based on analyses of population structure. Secondly, to estimate heritability and effects of genotype × environment (GXE) interaction on common bean agronomic and yield traits in space and time. Sample genomic DNA was amplified in 2011 with 22 Simple sequence repeat markers (SSRs) and alleles separated using capillary electrophoresis. Field evaluations were conducted in 2010 and 2011 at NaCRRI and 2015 at CIAT – Kawanda. Multivariate analyses of SSRs data identified four subgroups within the germplasm: K4.1–K4.4, with corresponding Wrights fixation indices (FST) as 0.1829 for K4.1, 0.1585 for K4.4, 0.1579 for K4.2 and least for K4.3 at 0.0678. Gene pool race admixtures in the population (14%) were notable and attributed to gene flow. Four superior parents currently used in improving resistance to major diseases grouped as; Jalisco for MLB49-89A; Mesoamerica for MCM5001 and G2333; Durango for MEXICO 54. Heritability values for yield traits estimated using phenotypic data from above fixed parents, was above 0.81. Season and location had significant effect (P < 0.05) on numbers of: flower buds per inflorescence, pod formation and weight of 100 seeds. The findings will improve understanding of co-evolutionary relationships between bean hosts and pathogens for better disease management and will broaden the germplasm base for improving other tropical production constraints.

Keywords

SSRsMesoamericaracesdiseasesheritabilityyieldvariations

Information

Type
Research Article
Information
Plant Genetic Resources , Volume 16 , Issue 3 , June 2018 , pp. 237 - 248
Copyright
Copyright © NIAB 2017 

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References

Abebe, A, Brick, MA, Ogg, JB and Kirkby, JB (1996) Heritability of traits associated with dry bean seed yield. Annual Report of the Bean Improvement Cooperative, vol. 39.Google Scholar
Acquaah, G (2007) Principles of Plant Genetics and Breeding. UK: Blackwell Publishing, pp. 128–134.Google Scholar
Beebe, S, Gonzalez, AV, Rengifo, J (2000) Research on trace minerals in the common bean. Food and Nutrition Bulletin 21: 387–391.Google Scholar
Beebe, SE, Ochoa, I, Skroch, P, Nienhuis, J, Tivang, J (1995) Genetic diversity among common bean breeding lines developed for central America. Crop Science 35: 1178–1183.Google Scholar
Blair, MW, Iriarte, G, Beebe, S (2006a) QTL analysis of yield traits in an advanced backcross population derived from a cultivated andean and wild common bean (Phaseolus vulgaris L.) cross. Theoretical and Applied Genetics 112: 1149–1163.Google Scholar
Blair, MW, Giraldo, MC, Buendía, HF, Tovar, E, Duque, MC, Beebe, SE (2006b) Microsatellite marker diversity in common bean (Phaseolus vulgaris L.). Theoretical and Applied Genetics 113: 100–109.Google Scholar
Blair, MW, Fregene, MA, Beebe, SE, Ceballos, H (2007) Marker-assisted selection in common beans and cassava. In: Guimaraes, E (ed) Marker-Assisted Selection (MAS) in Crops, Livestock, Forestry and Fish: Current Status and the way Forward. Rome: FAO, pp. 81–115.Google Scholar
Blair, MW, Gonzalez, LF, Kimani, PM and Butare, L (2010) Genetic diversity, inter-gene pool introgression and nutritional quality of common beans (Phaseolus vulgaris L.) from central Africa. Theoretical and Applied Genetics 121: 237–248.Google Scholar
Broughton, WJ, Hernandez, G, Blair, MW, Beebe, SE, Gepts, P and Vanderleyden, J (2003) Beans (phaseolus spp.): model food legumes. Plant Soil 252: 55–128.CrossRefGoogle Scholar
Buah, S, Buruchara, R and Okori, P (2017) Molecular characterisation of common bean (Phaseolus vulgaris L.) accessions from Southwestern Uganda reveal high levels of genetic diversity. Genetic Resources and Crop Evolution 1–14.Google Scholar
Buruchara, R (2009) How participatory research convinced a sceptic. In Fortmann, L (ed) Participatory Research in Conservation and Rural Livelihoods: Doing Science Together. Oxford: Black Well Publishing, pp. 18–33.Google Scholar
Buruchara, R, Chirwa, R, Sperling, L, Mukankusi, C, Rubyogo, JC, Muthoni, Rand Abang, MM (2011) Development and delivery of bean research varieties in Africa: the Pan-Africa bean research alliance (PABRA) model. African Crop Science Journal 19: 227–245.Google Scholar
Caligari, PDS (2001) Plant Breeding and Crop Improvement. Encyclopedia of Life Sciences. Nature Publishing Group, Chichester:UK 1–8.Google Scholar
Dabholkar, AR (1992) Elements of Biometrical Genetics. New Delhi: Concept Publishing Company, pp. 38–165.Google Scholar
David, S, Sperling, L (1999) Improving technology delivery mechanisms: lessons from bean seed systems research in Eastern and central Africa. Agriculture and Human Values 16: 381–388.Google Scholar
Díaz, LM, Blair, MW (2006) Race structure within the Mesoamerican gene pool of common bean (Phaseolus vulgaris L.) as determined by microsatellite markers. Theoretical and Applied Genetics 114: 143–154.Google Scholar
Duarte, JM, João, BS and Leonardo, CM (1999) Comparison of similarity coefficients based on RAPD markers in the common bean. Genetics and Molecular Biology 22.3: 427–432.Google Scholar
Earl, DE, Vonholdt, BM (2012) Structure harvester: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conservation Genetics Resources 4: 359–361.Google Scholar
Evanno, G, Regnaut, S and Goudet, J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular Ecology 14: 2611–2620.Google Scholar
FAO (2009) Molecular Characterization of Mutant Germplasm. Manual. Vienna.Google Scholar
Gepts, P and Bliss, FA (1988) Dissemination pathways of common bean (Phaseolus vulgaris Fabaceae) deduced from phaseolin electrophoresis variability. II Europe and Africa. Economic Botany 42: 86–104.Google Scholar
Guzmán, P, Gilbertson, RL, Nodari, R, Johnson, WC, Temple, SR, Mandala, D, Mkandawire, ABC and Gepts, P (1995) Characterization of variability in the fungus Phaeoisariopsis griseola suggests coevolution with the common bean (Phaseolus vulgaris). Phytopathology 85: 600–607.Google Scholar
Hallauer, AR, Carena, MJ and Filho, JBM (2010) Quantitative Genetics in Maize Breeding, Hand Book of Plant Breeding. New York: Springer Science and Business Media, pp. 1–60.Google Scholar
Jolliffe, I (2002) Principal Component Analysis. New York: John Wiley and Sons, pp. 150–166.Google Scholar
Kelly, JD (2004) Advances in common bean improvement: some case histories with broader applications. Acta Hortic (ISHS) 637: 99–122.Google Scholar
Koinange, EMK, Singh, SP and Gepts, P (1996) Genetic control of the domestication syndrome in common bean. Crop Science 36.4: 1037–1045.Google Scholar
Liu, K, Muse, SV (2005) Powermarker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21: 2128–2129.Google Scholar
Mahuku, GS, Henríquez, MA, Munõz, J, Buruchara, RA (2002) Molecular markers dispute the existence of the Afro-andean group of the bean angular leaf spot pathogen, Pseudocercospora griseola. Phytopathology 92: 580–589.Google Scholar
Mamidi, S, Rossi, M, Moghaddam, SM, Annam, D, Lee, R, Papa, R and McClean, PE (2013) Demographic factors shaped diversity in the two gene pools of wild common bean Phaseolus vulgaris L. Heredity 110: 267–276.Google Scholar
Miklas, PN, Kelly, JD, Beebe, SE and Blair, MW (2006) Common bean breeding for resistance against biotic and abiotic stresses: from classical to MAS breeding. Euphytica 147: 105–131.Google Scholar
Muthomi, JW, Muimui, KK and Kimani, PM (2011) Inheritance of resistance to angular leaf spot in yellow beans. African Crop Science Journal 19: 267–275.Google Scholar
Myles, S, Peiffer, J, Brown, PJ, Ersoz, ES, Zhang, Z, Costich, DE (2009) Association mapping: critical considerations shift from genotyping to experimental design. Plant Cell 21: 2194–2202.Google Scholar
Namayanja, A, Buruchara, R, Mahuku, G, Rubaihayo, P, Kimani, P, Mayanja, S and Eyedu, H (2006) Inheritance of resistance to angular leaf spot in common bean and validation of the utility of resistance linked markers for marker assisted selection outside the mapping population. Euphytica 151: 361–369.Google Scholar
Okii, D, Tukamuhabwa, P, Odong, P, Namayanja, A, Mukabaranga, J, Paparu, P, Gepts, P (2014a) Morphological diversity of tropical common bean germplasm. African Crop Science Journal 22: 59–68.Google Scholar
Okii, D, Tukamuhabwa, P, Kami, J, Namayanja, A, Paparu, P, Ugen, M and Gepts, P (2014b) The genetic diversity and population structure of common bean (Phaseolus vulgaris L.) germplasm in Uganda. African Journal of Biotechnology 13: 2935–2949.Google Scholar
Otsyula, R, Rachier, G, Ambitsi, N, Ndiya, RJC, Buruchara, R and Sperling, L (2004) The use of informal seed producer groups for diffusing root rot resistant varieties during period of acute stress. In Sperling, L, Remington, T, Haugen, J and Nagoda, S (eds) Addressing Seed Security in Disaster Response: Linking Relief with Development. Cali: CIAT, pp. 69–89.Google Scholar
Otsyula, RM, Ajanga, SI, Buruchara, RA and Wortmann, C.S. (1998) Development of an integrated bean root rot control strategy for western Kenya. African Crop Science Journal 6: 61–67.Google Scholar
Pastor-Corrales, MA, Erazo, OA, Esrada, EI and Singh, SP (1994) Inheritance of anthracnose resistance in common bean accession G 2333. Plant Disease 78: 959–962.Google Scholar
Pathania, A, Sharma, SK and Sharma, PN (2014) Common bean. In Singh M., et al. (eds) Broadening the Genetic Base of Grain Legumes. India: Springer, pp. 11–50.CrossRefGoogle Scholar
Perrier, X, Jacquemoud-Collet, JP (2006) DARwin software. http://darwin.cirad.fr/darwinGoogle Scholar
Pritchard, JK, Stephens, W and Donnelly, P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945–959.Google Scholar
SAS Institute Inc (2011) The Statistical Analysis System for Windows V.9. Cary, North Carolina.Google Scholar
Sengooba, TN, Spence, NJ, Walkey, DGA, Allen, DJ and Lana, AF (1997) The occurrence of bean common mosaic necrosis virus in wild and forage legumes in Uganda. Plant Pathology 46: 95–103.Google Scholar
Singh, SP and Muñoz, CG (1999) Resistance to common bacterial blight among Phaseolus species and common bean improvement. Crop Science 39: 80–89.Google Scholar
Singh, SP, Gepts, P and Debouck, DG (1991) Races of common bean (Phaseolus vulgaris, Fabaceae). Economic Botany 45: 379–396.Google Scholar
Singh, SP, Molina, A, Urrea, CA and Gutierrez, JA (1993) Use of interracial hybridization in breeding the race Durango common bean. Canadian Journal of Plant Science 73: 785–793.Google Scholar
Singh, SP, Muñoz, CG and Terán, H (2001) Registration of common bacterial blight resistant dry bean germplasm VAX 1, VAX 3, and VAX 4. Crop Sci. 41: 275–276.Google Scholar
Susi, H (2014) Host-pathogen coevolution through trade-offs and coinfection. PhD Thesis, University of Helsinki, Finland.Google Scholar
Wortmann, CS, Kirkby, RA, Eledu, CA and Allen, DJ (1998) Atlas of Common Bean (Phaseolus Vulgaris L.) Production in Africa. Cali, Colombia: Centro International de Agricultura.Google Scholar
Wright, S (1965) The interpretation of population-structure by F-statistics with special regard to systems of mating. Evolution 19: 395–420.Google Scholar
Young, RA and Kelly, JD (1996) Characterization of the genetic resistance to Colletotrichum lindemuthianum in common bean differential cultivars. Plant Disease 80: 650–654.Google Scholar
Yu, J, Buckler, ES (2006) Genetic association mapping and genome organization of maize. Current Opinion in Biotechnology 17: 155–160.Google Scholar
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