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Article: Variability and genetic merits of white Guinea yam landraces in Nigeria.

Agre, Paterne A / Edemodu, Alex / Obidiegwu, Jude E / Adebola, Patrick / Asiedu, Robert / Asfaw, Asrat

2023 Volume 14, Page(s) 1051840

Abstract: Introduction: Landraces represent a significant gene pool of African cultivated white Guinea yam diversity. They could, therefore, serve as a potential donor of important traits such as resilience to stresses as well as food quality attributes that may ... ...

Abstract	Introduction: Landraces represent a significant gene pool of African cultivated white Guinea yam diversity. They could, therefore, serve as a potential donor of important traits such as resilience to stresses as well as food quality attributes that may be useful in modern yam breeding. This study assessed the pattern of genetic variability, quantitative trait loci (QTLs), alleles, and genetic merits of landraces, which could be exploited in breeding for more sustainable yam production in Africa. Methods: A total of 86 white Guinea yam landraces representing the popular landraces in Nigeria alongside 16 elite clones were used for this study. The yam landraces were genotyped using 4,819 DArTseq SNP markers and profiled using key productivity and food quality traits. Results and discussion: Genetic population structure through admixture and hierarchical clustering methods revealed the presence of three major genetic groups. Genome-wide association scan identified thirteen SNP markers associated with five key traits, suggesting that landraces constitute a source of valuable genes for productivity and food quality traits. Further dissection of their genetic merits in yam breeding using the Genomic Prediction of Cross Performance (GPCP) allowed identifying several landraces with high crossing merit for multiple traits. Thirteen landraces were identified as potential genitors to develop segregating progenies to improve multiple traits simultaneously for desired gains in yam breeding. Results of this study provide valuable insights into the patterns and the merits of local genetic diversity which can be utilized for identifying desirable genes and alleles of interest in yam breeding for Africa.
Language	English
Publishing date	2023-02-06
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2613694-6
ISSN	1664-462X
ISSN	1664-462X
DOI	10.3389/fpls.2023.1051840
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: The

Obidiegwu, Jude E / Lyons, Jessica B / Chilaka, Cynthia A

Foods (Basel, Switzerland)

2020 Volume 9, Issue 9

Abstract: The quest for a food secure and safe world has led to continuous effort toward improvements of global food and health systems. While the developed countries seem to have these systems stabilized, some parts of the world still face enormous challenges. ... ...

Abstract	The quest for a food secure and safe world has led to continuous effort toward improvements of global food and health systems. While the developed countries seem to have these systems stabilized, some parts of the world still face enormous challenges. Yam (
Language	English
Publishing date	2020-09-16
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2704223-6
ISSN	2304-8158
ISSN	2304-8158
DOI	10.3390/foods9091304
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Article: Comparative Metabolomics Profiling Reveals Key Metabolites and Associated Pathways Regulating Tuber Dormancy in White Yam (

Nwogha, Jeremiah S / Wosene, Abtew G / Raveendran, Muthurajan / Obidiegwu, Jude E / Oselebe, Happiness O / Kambale, Rohit / Chilaka, Cynthia A / Rajagopalan, Veera Ranjani

Metabolites

2023 Volume 13, Issue 5

Abstract: Yams are economic and medicinal crops with a long growth cycle, spanning between 9-11 months due to their prolonged tuber dormancy. Tuber dormancy has constituted a major constraint in yam production and genetic improvement. In this study, we performed ... ...

Abstract	Yams are economic and medicinal crops with a long growth cycle, spanning between 9-11 months due to their prolonged tuber dormancy. Tuber dormancy has constituted a major constraint in yam production and genetic improvement. In this study, we performed non-targeted comparative metabolomic profiling of tubers of two white yam genotypes, (
Language	English
Publishing date	2023-04-28
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2662251-8
ISSN	2218-1989
ISSN	2218-1989
DOI	10.3390/metabo13050610
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Article: The Dioscorea Genus (Yam)—An Appraisal of Nutritional and Therapeutic Potentials

Obidiegwu, Jude E / Lyons, Jessica B / Chilaka, Cynthia A

Foods. 2020 Sept. 16, v. 9, no. 9

2020

Abstract	The quest for a food secure and safe world has led to continuous effort toward improvements of global food and health systems. While the developed countries seem to have these systems stabilized, some parts of the world still face enormous challenges. Yam (Dioscorea species) is an orphan crop, widely distributed globally; and has contributed enormously to food security especially in sub-Saharan Africa because of its role in providing nutritional benefits and income. Additionally, yam has non-nutritional components called bioactive compounds, which offer numerous health benefits ranging from prevention to treatment of degenerative diseases. Pharmaceutical application of diosgenin and dioscorin, among other compounds isolated from yam, has shown more prospects recently. Despite the benefits embedded in yam, reports on the nutritional and therapeutic potentials of yam have been fragmented and the diversity within the genus has led to much confusion. An overview of the nutritional and health importance of yam will harness the crop to meet its potential towards combating hunger and malnutrition, while improving global health. This review makes a conscious attempt to provide an overview regarding the nutritional, bioactive compositions and therapeutic potentials of yam diversity. Insights on how to increase its utilization for a greater impact are elucidated.
Keywords	Dioscorea ; bioactive compounds ; developed countries ; diosgenin ; face ; food security ; foods ; harness ; hunger ; income ; malnutrition ; nutritive value ; therapeutics ; yams ; Sub-Saharan Africa
Language	English
Dates of publication	2020-0916
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article
Note	NAL-light
ZDB-ID	2704223-6
ISSN	2304-8158
ISSN	2304-8158
DOI	10.3390/foods9091304
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Role of Non-Structural Sugar Metabolism in Regulating Tuber Dormancy in White Yam (Dioscorea rotundata)

Nwogha, Jeremiah S. / Abtew, Wosene G. / Raveendran, Muthurajan / Oselebe, Happiness O. / Obidiegwu, Jude E. / Chilaka, Cynthia A. / Amirtham, Damodarasamy D.

Agriculture. 2023 Jan. 30, v. 13, no. 2

2023

Abstract: Changes in sugar composition occur continuously in plant tissues at different developmental stages. Tuber dormancy induction, stability, and breaking are very critical developmental transitions in yam crop production. Prolonged tuber dormancy after ... ...

Abstract	Changes in sugar composition occur continuously in plant tissues at different developmental stages. Tuber dormancy induction, stability, and breaking are very critical developmental transitions in yam crop production. Prolonged tuber dormancy after physiological maturity has constituted a great challenge in yam genetic improvement and productivity. In the present study, biochemical profiling of non-structural sugar in yam tubers during dormancy was performed to determine the role of non-structural sugar in yam tuber dormancy regulation. Two genotypes of the white yam species, one local genotype (Obiaoturugo) and one improved genotype (TDr1100873), were used for this study. Tubers were sampled at 42, 56, 87, 101, 115, and 143 days after physiological maturity (DAPM). Obiaoturugo exhibited a short dormant phenotype and sprouted at 101-DAPM, whereas TDr1100873 exhibited a long dormant phenotype and sprouted at 143-DAPM. Significant metabolic changes were observed in non-structural sugar parameters, dry matter, and moisture content in Obiaoturugo from 56-DAPM, whereas in TDr1100873, significant metabolic changes were observed from 101-DAPM. It was observed that the onset of these metabolic changes occurred at a point when the tubers of both genotypes exhibited a dry matter content of 60%, indicating that a dry matter content of 60% might be a critical threshold for white yam tuber sprouting. Non-reducing sugars increased by 9–10-fold during sprouting in both genotypes, which indicates their key role in tuber dormancy regulation in white yam. This result implicates that some key sugar metabolites can be targeted for dormancy manipulation of the yam crop.
Keywords	Dioscorea rotundata ; agriculture ; crop production ; dormancy ; dry matter content ; genetic improvement ; genotype ; metabolism ; metabolites ; phenotype ; sugars ; water content ; yams
Language	English
Dates of publication	2023-0130
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article ; Online
ZDB-ID	2651678-0
ISSN	2077-0472
ISSN	2077-0472
DOI	10.3390/agriculture13020343
Database	NAL-Catalogue (AGRICOLA)

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Article: Coping with drought: stress and adaptive responses in potato and perspectives for improvement.

Obidiegwu, Jude E / Bryan, Glenn J / Jones, Hamlyn G / Prashar, Ankush

Frontiers in plant science

2015 Volume 6, Page(s) 542

Abstract: Potato (Solanum tuberosum L.) is often considered as a drought sensitive crop and its sustainable production is threatened due to frequent drought episodes. There has been much research aiming to understand the physiological, biochemical, and genetic ... ...

Abstract	Potato (Solanum tuberosum L.) is often considered as a drought sensitive crop and its sustainable production is threatened due to frequent drought episodes. There has been much research aiming to understand the physiological, biochemical, and genetic basis of drought tolerance in potato as a basis for improving production under drought conditions. The complex phenotypic response of potato plants to drought is conditioned by the interactive effects of the plant's genotypic potential, developmental stage, and environment. Effective crop improvement for drought tolerance will require the pyramiding of many disparate characters, with different combinations being appropriate for different growing environments. An understanding of the interaction between below ground water uptake by the roots and above ground water loss from the shoot system is essential. The development of high throughput precision phenotyping platforms is providing an exciting new tool for precision screening, which, with the incorporation of innovative screening strategies, can aid the selection and pyramiding of drought-related genes appropriate for specific environments. Outcomes from genomics, proteomics, metabolomics, and bioengineering advances will undoubtedly compliment conventional breeding strategies and presents an alternative route toward development of drought tolerant potatoes. This review presents an overview of past research activity, highlighting recent advances with examples from other crops and suggesting future research directions.
Language	English
Publishing date	2015-07-22
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2613694-6
ISSN	1664-462X
ISSN	1664-462X
DOI	10.3389/fpls.2015.00542
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Chromosome evolution and the genetic basis of agronomically important traits in greater yam.

Bredeson, Jessen V / Lyons, Jessica B / Oniyinde, Ibukun O / Okereke, Nneka R / Kolade, Olufisayo / Nnabue, Ikenna / Nwadili, Christian O / Hřibová, Eva / Parker, Matthew / Nwogha, Jeremiah / Shu, Shengqiang / Carlson, Joseph / Kariba, Robert / Muthemba, Samuel / Knop, Katarzyna / Barton, Geoffrey J / Sherwood, Anna V / Lopez-Montes, Antonio / Asiedu, Robert /

Jamnadass, Ramni / Muchugi, Alice / Goodstein, David / Egesi, Chiedozie N / Featherston, Jonathan / Asfaw, Asrat / Simpson, Gordon G / Doležel, Jaroslav / Hendre, Prasad S / Van Deynze, Allen / Kumar, Pullikanti Lava / Obidiegwu, Jude E / Bhattacharjee, Ranjana / Rokhsar, Daniel S

Nature communications

2022 Volume 13, Issue 1, Page(s) 2001

Abstract: The nutrient-rich tubers of the greater yam, Dioscorea alata L., provide food and income security for millions of people around the world. Despite its global importance, however, greater yam remains an orphan crop. Here, we address this resource gap by ... ...

Abstract	The nutrient-rich tubers of the greater yam, Dioscorea alata L., provide food and income security for millions of people around the world. Despite its global importance, however, greater yam remains an orphan crop. Here, we address this resource gap by presenting a highly contiguous chromosome-scale genome assembly of D. alata combined with a dense genetic map derived from African breeding populations. The genome sequence reveals an ancient allotetraploidization in the Dioscorea lineage, followed by extensive genome-wide reorganization. Using the genomic tools, we find quantitative trait loci for resistance to anthracnose, a damaging fungal pathogen of yam, and several tuber quality traits. Genomic analysis of breeding lines reveals both extensive inbreeding as well as regions of extensive heterozygosity that may represent interspecific introgression during domestication. These tools and insights will enable yam breeders to unlock the potential of this staple crop and take full advantage of its adaptability to varied environments.
MeSH term(s)	Chromosomes ; Dioscorea/genetics ; Humans ; Plant Breeding ; Plant Tubers ; Quantitative Trait Loci/genetics
Language	English
Publishing date	2022-04-14
Publishing country	England
Document type	Journal Article ; Research Support, U.S. Gov't, Non-P.H.S. ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-022-29114-w
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Article ; Online: Chromosome evolution and the genetic basis of agronomically important traits in greater yam

Jessen V. Bredeson / Jessica B. Lyons / Ibukun O. Oniyinde / Nneka R. Okereke / Olufisayo Kolade / Ikenna Nnabue / Christian O. Nwadili / Eva Hřibová / Matthew Parker / Jeremiah Nwogha / Shengqiang Shu / Joseph Carlson / Robert Kariba / Samuel Muthemba / Katarzyna Knop / Geoffrey J. Barton / Anna V. Sherwood / Antonio Lopez-Montes / Robert Asiedu /

Ramni Jamnadass / Alice Muchugi / David Goodstein / Chiedozie N. Egesi / Jonathan Featherston / Asrat Asfaw / Gordon G. Simpson / Jaroslav Doležel / Prasad S. Hendre / Allen Van Deynze / Pullikanti Lava Kumar / Jude E. Obidiegwu / Ranjana Bhattacharjee / Daniel S. Rokhsar

Nature Communications, Vol 13, Iss 1, Pp 1-

2022 Volume 16

Abstract: While greater yam provides food and income security for millions of people around the world, there are limited genomic resources available. Here, the authors report a chromosome-scale assembly of the greater yam genome as well as quantitative trait loci ... ...

Abstract	While greater yam provides food and income security for millions of people around the world, there are limited genomic resources available. Here, the authors report a chromosome-scale assembly of the greater yam genome as well as quantitative trait loci associated with anthracnose resistance and tuber traits.
Keywords	Science ; Q
Language	English
Publishing date	2022-04-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
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Article ; Online: Genomic architecture of potato resistance to Synchytrium endobioticum disentangled using SSR markers and the 8.3k SolCAP SNP genotyping array.

Obidiegwu, Jude Eijkeme / Sanetomo, Rena / Flath, Kerstin / Tacke, Eckhard / Hofferbert, Hans-Reinhard / Hofmann, Andrea / Walkemeier, Birgit / Gebhardt, Christiane

BMC genetics

2015 Volume 16, Page(s) 38

Abstract: Background: The soil borne, obligate biotrophic fungus Synchytrium endobioticum causes tumor-like tissue proliferation (wart) in potato tubers and thereby considerable crop damage. Chemical control is not effective and unfriendly to the environment. S. ... ...

Abstract	Background: The soil borne, obligate biotrophic fungus Synchytrium endobioticum causes tumor-like tissue proliferation (wart) in potato tubers and thereby considerable crop damage. Chemical control is not effective and unfriendly to the environment. S. endobioticum is therefore a quarantined pathogen. The emergence of new pathotypes of the fungus aggravate this agricultural problem. The best control of wart disease is the cultivation of resistant varieties. Phenotypic screening for resistant cultivars is however time, labor and material intensive. Breeding for resistance would therefore greatly benefit from diagnostic DNA markers that can be applied early in the breeding cycle. The prerequisite for the development of diagnostic DNA markers is the genetic dissection of the factors that control resistance to S. endobioticum in various genetic backgrounds of potato. Results: Progeny of a cross between a wart resistant and a susceptible tetraploid breeding clone was evaluated for resistance to S. endobioticum pathotypes 1, 2, 6 and 18 most relevant in Europe. The same progeny was genotyped with 195 microsatellite and 8303 single nucleotide polymorphism (SNP) markers. Linkage analysis identified the multi-allelic locus Sen1/RSe-XIa on potato chromosome XI as major factor for resistance to all four S. endobioticum pathotypes. Six additional, independent modifier loci had smaller effects on wart resistance. Combinations of markers linked to Sen1/RSe-XIa resistance alleles with one to two additional markers were sufficient for obtaining high levels of resistance to S. endobioticum pathotypes 1, 2, 6 and 18 in the analyzed genetic background. Conclusions: Potato resistance to S. endobioticum is oligogenic with one major and several minor resistance loci. It is composed of multiple alleles for resistance and susceptibility that originate from multiple sources. The genetics of resistance to S. endobioticum varies therefore between different genetic backgrounds. The DNA markers described in this paper are the starting point for pedigree based selection of cultivars with high levels of resistance to S. endobioticum pathotypes 1, 2, 6 and 18.
MeSH term(s)	Chytridiomycota ; Disease Resistance/genetics ; Genes, Plant ; Genome, Plant ; Genome-Wide Association Study/methods ; Genotyping Techniques ; Haplotypes ; Microsatellite Repeats ; Models, Genetic ; Multigene Family ; Phenotype ; Plant Diseases/genetics ; Plant Diseases/microbiology ; Polymorphism, Single Nucleotide ; Quantitative Trait Loci ; Solanum tuberosum/genetics ; Solanum tuberosum/microbiology
Language	English
Publishing date	2015-04-16
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1471-2156
ISSN (online)	1471-2156
DOI	10.1186/s12863-015-0195-y
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Article ; Online: Yam genomics supports West Africa as a major cradle of crop domestication.

Scarcelli, Nora / Cubry, Philippe / Akakpo, Roland / Thuillet, Anne-Céline / Obidiegwu, Jude / Baco, Mohamed N / Otoo, Emmanuel / Sonké, Bonaventure / Dansi, Alexandre / Djedatin, Gustave / Mariac, Cédric / Couderc, Marie / Causse, Sandrine / Alix, Karine / Chaïr, Hâna / François, Olivier / Vigouroux, Yves

Science advances

2019 Volume 5, Issue 5, Page(s) eaaw1947

Abstract: While there has been progress in our understanding of the origin and history of agriculture in sub-Saharan Africa, a unified perspective is still lacking on where and how major crops were domesticated in the region. Here, we investigated the ... ...

Abstract	While there has been progress in our understanding of the origin and history of agriculture in sub-Saharan Africa, a unified perspective is still lacking on where and how major crops were domesticated in the region. Here, we investigated the domestication of African yam (
MeSH term(s)	Africa, Western ; Agriculture ; Base Sequence ; Crops, Agricultural/genetics ; Dioscorea/genetics ; Domestication ; Evolution, Molecular ; Forests ; Genome, Plant ; Genomics/methods ; Models, Statistical ; Oryza/genetics ; Pennisetum/genetics ; Plant Leaves/genetics ; Polymorphism, Single Nucleotide/genetics ; Rivers ; Whole Genome Sequencing
Language	English
Publishing date	2019-05-01
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2810933-8
ISSN	2375-2548 ; 2375-2548
ISSN (online)	2375-2548
ISSN	2375-2548
DOI	10.1126/sciadv.aaw1947
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