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Ayenan MAT, Danquah A, Ahoton LE, Ofori K. Utilization and farmers' knowledge on pigeonpea diversity in Benin, West Africa. J Ethnobiol Ethnomed 2017; 13:37. [PMID: 28633633 PMCID: PMC5477678 DOI: 10.1186/s13002-017-0164-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2017] [Accepted: 06/08/2017] [Indexed: 05/18/2023]
Abstract
BACKGROUND Understanding factors driving farmers' uses of crop genetic resources is a key component not only to design appropriate conservation strategies but also to promote sustainable production. However, in Benin, limited information is available on farmers' knowledge related to pigeonpea uses and conservation. This study aimed at i) identifying and investigating the different uses of pigeonpea in relation with socio-cultural factors, namely age, gender, ethnic group and respondents' residence, ii) assessing pigeonpea varieties richness at household level and iii) evaluating the extent and distribution of pigeonpea varieties. METHODS Three hundred and two farmers were surveyed using structured questionnaire. Direct observation, field visit and focus group discussion were carried out. Association between number of varieties maintained at household level and socio-cultural variables was tested. Mann-Whitney test was used to assess whether the number of varieties held by households headed by men and women were different. Distribution and extent of diversity was assessed through four cells analysis. RESULTS Farmers in Benin mainly grow pigeonpea for its grains for home consumption. Pigeonpea's stem and leaves are used for medicinal purposes to treat malaria, dizziness, measles, and eye infection. The ethnic group and the locality of residence of farmers influenced on the use of pigeonpea for medicinal purposes (P < 0.01). There was no significant association (P > 0.05) between the number of varieties held by household and the age of the respondent, number of years of experience in pigeonpea cultivation, the size of household, number of family members engaged in agricultural activities and gender. Farmers used criteria including seed colors, seed size, plant height, maturity groups and cooking time to classify their varieties. Varieties with white seed coat color were the most grown while varieties with black, red or mottled seed coat color are being abandoned and deserve to be conserved. CONCLUSION Knowledge on medicinal uses of pigeonpea is vertically transmitted within community and pigeonpea varieties maintenance at household level does not depend on socio-cultural factors. This study will contribute to raise awareness on the various utilization of pigeonpea. In addition, it provides the basis for designing conservation strategies of pigeonpea genetic resources.
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Affiliation(s)
- Mathieu Anatole Tele Ayenan
- Department of Crop Science, School of Agriculture, College of Basic and Applied Sciences, University of Ghana, P. O. Box LG 44, Legon, Ghana
| | - Agyemang Danquah
- Department of Crop Science, School of Agriculture, College of Basic and Applied Sciences, University of Ghana, P. O. Box LG 44, Legon, Ghana
| | - Léonard Essehou Ahoton
- Department of Crop Science, Faculty of Agronomic Sciences (FSA), University of Abomey- Calavi, 01 BP 526 Cotonou, Republic of Benin
| | - Kwadwo Ofori
- Department of Crop Science, School of Agriculture, College of Basic and Applied Sciences, University of Ghana, P. O. Box LG 44, Legon, Ghana
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Saxena RK, Kale SM, Kumar V, Parupali S, Joshi S, Singh V, Garg V, Das RR, Sharma M, Yamini KN, Ghanta A, Rathore A, Sameerkumar CV, Saxena KB, Varshney RK. Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea. Sci Rep 2017; 7:1813. [PMID: 28500330 PMCID: PMC5431754 DOI: 10.1038/s41598-017-01535-4] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2016] [Accepted: 03/30/2017] [Indexed: 01/09/2023] Open
Abstract
Sterility mosaic disease (SMD) is one of the serious production constraints that may lead to complete yield loss in pigeonpea. Three mapping populations including two recombinant inbred lines and one F2, were used for phenotyping for SMD resistance at two locations in three different years. Genotyping-by-sequencing approach was used for simultaneous identification and genotyping of SNPs on above mentioned populations. In total, 212,464, 89,699 and 64,798 SNPs were identified in ICPL 20096 × ICPL 332 (PRIL_B), ICPL 20097 × ICP 8863 (PRIL_C) and ICP 8863 × ICPL 87119 (F2) respectively. By using high-quality SNPs, genetic maps were developed for PRIL_B (1,101 SNPs; 921.21 cM), PRIL_C (484 SNPs; 798.25 cM) and F2 (996 SNPs; 1,597.30 cM) populations. The average inter marker distance on these maps varied from 0.84 cM to 1.65 cM, which was lowest in all genetic mapping studies in pigeonpea. Composite interval mapping based QTL analysis identified a total of 10 QTLs including three major QTLs across the three populations. The phenotypic variance of the identified QTLs ranged from 3.6 to 34.3%. One candidate genomic region identified on CcLG11 seems to be promising QTL for molecular breeding in developing superior lines with enhanced resistance to SMD.
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Affiliation(s)
- Rachit K Saxena
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Sandip M Kale
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Vinay Kumar
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Swathi Parupali
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Shourabh Joshi
- Institute of Biotechnology, Professor Jayshankar Telangana State Agricultural University (PJTSAU), Rajendranagar, Hyderabad, 500 030, India
| | - Vikas Singh
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Vanika Garg
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Roma R Das
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Mamta Sharma
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - K N Yamini
- Institute of Biotechnology, Professor Jayshankar Telangana State Agricultural University (PJTSAU), Rajendranagar, Hyderabad, 500 030, India
| | - Anuradha Ghanta
- Institute of Biotechnology, Professor Jayshankar Telangana State Agricultural University (PJTSAU), Rajendranagar, Hyderabad, 500 030, India
| | - Abhishek Rathore
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - C V Sameerkumar
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - K B Saxena
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India
| | - Rajeev K Varshney
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India.
- School of Plant Biology and Institute of Agriculture, The University of Western Australia, Crawley, WA, 6009, Australia.
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Wei ZF, Jin S, Luo M, Pan YZ, Li TT, Qi XL, Efferth T, Fu YJ, Zu YG. Variation in contents of main active components and antioxidant activity in leaves of different pigeon pea cultivars during growth. J Agric Food Chem 2013; 61:10002-10009. [PMID: 24066714 DOI: 10.1021/jf402455m] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Pigeon pea is an important and multiuse grain legume crop, and its leaves are a very valuable natural resource. To obtain a high-quality biological resource, it is necessary to choose the excellent cultivar and determine the appropriate harvest time. In this study, the variation in contents of main active components and antioxidant activity in leaves of six pigeon pea cultivars during growth were investigated. The level of each individual active component significantly varied during growth, but with a different pattern, and this variation was different among cultivars. Flavonoid glycosides orientin, vitexin, and apigenin-6,8-di-C-α-L-arabinopyranoside showed two peak values at mid-late and final stages of growth in most cases. Pinostrobin chalcone, longistyline C, and cajaninstilbene acid showed remarkablely higher values at the mid-late stage of growth than at other stages. Pinostrobin had an extremely different variation pattern compared to other active components. Its content was the highest at the earlier stage of growth. Principal component analysis (PCA) revealed that vitexin and apigenin-6,8-di-C-α-L-arabinopyranoside were mainly responsible for distinguishing cultivars analyzed. In a comprehensive consideration, the leaves should preferentially be harvested at the 135th day after sowing when the level of active components and antioxidant activity reached higher values. Cultivars ICP 13092, ICPL 87091, and ICPL 96053 were considered to be excellent cultivars with high antioxidant activity. Our findings can provide valuable information for producing a high-quality pigeon pea resource.
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Affiliation(s)
- Zuo-Fu Wei
- Key Laboratory of Forest Plant Ecology, Ministry of Education, and §Engineering Research Center of Forest Bio-preparation, Ministry of Education, Northeast Forestry University , Harbin, Heilongjiang 150040, People's Republic of China
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Kudapa H, Bharti AK, Cannon SB, Farmer AD, Mulaosmanovic B, Kramer R, Bohra A, Weeks NT, Crow JA, Tuteja R, Shah T, Dutta S, Gupta DK, Singh A, Gaikwad K, Sharma TR, May GD, Singh NK, Varshney RK. A comprehensive transcriptome assembly of Pigeonpea (Cajanus cajan L.) using sanger and second-generation sequencing platforms. Mol Plant 2012; 5:1020-8. [PMID: 22241453 PMCID: PMC3440007 DOI: 10.1093/mp/ssr111] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2011] [Accepted: 11/29/2011] [Indexed: 05/18/2023]
Abstract
A comprehensive transcriptome assembly for pigeonpea has been developed by analyzing 128.9 million short Illumina GA IIx single end reads, 2.19 million single end FLX/454 reads, and 18 353 Sanger expressed sequenced tags from more than 16 genotypes. The resultant transcriptome assembly, referred to as CcTA v2, comprised 21 434 transcript assembly contigs (TACs) with an N50 of 1510 bp, the largest one being ~8 kb. Of the 21 434 TACs, 16 622 (77.5%) could be mapped on to the soybean genome build 1.0.9 under fairly stringent alignment parameters. Based on knowledge of intron junctions, 10 009 primer pairs were designed from 5033 TACs for amplifying intron spanning regions (ISRs). By using in silico mapping of BAC-end-derived SSR loci of pigeonpea on the soybean genome as a reference, putative mapping positions at the chromosome level were predicted for 6284 ISR markers, covering all 11 pigeonpea chromosomes. A subset of 128 ISR markers were analyzed on a set of eight genotypes. While 116 markers were validated, 70 markers showed one to three alleles, with an average of 0.16 polymorphism information content (PIC) value. In summary, the CcTA v2 transcript assembly and ISR markers will serve as a useful resource to accelerate genetic research and breeding applications in pigeonpea.
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Affiliation(s)
- Himabindu Kudapa
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru 502324, India
| | - Arvind K. Bharti
- National Center for Genome Resources (NCGR), Santa Fe, NM 87505, USA
| | - Steven B. Cannon
- United States Department of Agriculture–Agricultural Research Service (USDA–ARS), Corn Insects and Crop Genetics Research Unit, Ames, IA, USA
- Department of Agronomy, Iowa State University, Amens, IA, USA
| | - Andrew D. Farmer
- National Center for Genome Resources (NCGR), Santa Fe, NM 87505, USA
| | - Benjamin Mulaosmanovic
- United States Department of Agriculture–Agricultural Research Service (USDA–ARS), Corn Insects and Crop Genetics Research Unit, Ames, IA, USA
| | - Robin Kramer
- National Center for Genome Resources (NCGR), Santa Fe, NM 87505, USA
| | - Abhishek Bohra
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru 502324, India
| | - Nathan T. Weeks
- United States Department of Agriculture–Agricultural Research Service (USDA–ARS), Corn Insects and Crop Genetics Research Unit, Ames, IA, USA
| | - John A. Crow
- National Center for Genome Resources (NCGR), Santa Fe, NM 87505, USA
| | - Reetu Tuteja
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru 502324, India
| | - Trushar Shah
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru 502324, India
| | - Sutapa Dutta
- National Research Centre on Plant Biotechnology (NRCPB), Indian Agricultural Research Institute, New Delhi 110 012, India
| | - Deepak K. Gupta
- National Research Centre on Plant Biotechnology (NRCPB), Indian Agricultural Research Institute, New Delhi 110 012, India
| | - Archana Singh
- National Research Centre on Plant Biotechnology (NRCPB), Indian Agricultural Research Institute, New Delhi 110 012, India
| | - Kishor Gaikwad
- National Research Centre on Plant Biotechnology (NRCPB), Indian Agricultural Research Institute, New Delhi 110 012, India
| | - Tilak R. Sharma
- National Research Centre on Plant Biotechnology (NRCPB), Indian Agricultural Research Institute, New Delhi 110 012, India
| | - Gregory D. May
- National Center for Genome Resources (NCGR), Santa Fe, NM 87505, USA
| | - Nagendra K. Singh
- National Research Centre on Plant Biotechnology (NRCPB), Indian Agricultural Research Institute, New Delhi 110 012, India
| | - Rajeev K. Varshney
- International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru 502324, India
- CGIAR Generation Challenge Programme (GCP), c/o CIMMYT, 06600 Mexico DF, Mexico
- To whom correspondence should be addressed at address. E-mail , tel. +91 4030713305, fax +91 40 30713074
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Yang S, Pang W, Ash G, Harper J, Carling J, Wenzl P, Huttner E, Zong X, Kilian A. Low level of genetic diversity in cultivated Pigeonpea compared to its wild relatives is revealed by diversity arrays technology. Theor Appl Genet 2006; 113:585-95. [PMID: 16845522 DOI: 10.1007/s00122-006-0317-z] [Citation(s) in RCA: 82] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2005] [Accepted: 05/09/2006] [Indexed: 05/04/2023]
Abstract
Understanding the distribution of genetic diversity among individuals, populations and gene pools is crucial for the efficient management of germplasm collections and breeding programs. Diversity analysis is routinely carried out using sequencing of selected gene(s) or molecular marker technologies. Here we report on the development of Diversity Arrays Technology (DArT) for pigeonpea (Cajanus cajan) and its wild relatives. DArT tests thousands of genomic loci for polymorphism and provides the binary scores for hundreds of markers in a single hybridization-based assay. We tested eight complexity reduction methods using various combinations of restriction enzymes and selected PstI/HaeIII genomic representation with the largest frequency of polymorphic clones (19.8%) to produce genotyping arrays. The performance of the PstI/HaeIII array was evaluated by typing 96 accessions representing nearly 20 species of Cajanus. A total of nearly 700 markers were identified with the average call rate of 96.0% and the scoring reproducibility of 99.7%. DArT markers revealed genetic relationships among the accessions consistent with the available information and systematic classification. Most of the diversity was among the wild relatives of pigeonpea or between the wild species and the cultivated C. cajan. Only 64 markers were polymorphic among the cultivated accessions. Such narrow genetic base is likely to represent a serious impediment to breeding progress in pigeonpea. Our study shows that DArT can be effectively applied in molecular systematics and biodiversity studies.
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Affiliation(s)
- Shiying Yang
- DArT P/L, PO Box 7141, Yarralumla, ACT 2600, Australia
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