Development and assessment of Diversity Arrays Technology for high-throughput DNA analyses in Musa.

TitleDevelopment and assessment of Diversity Arrays Technology for high-throughput DNA analyses in Musa.
Publication TypeJournal Article
Year of Publication2009
AuthorsRisterucci A-M, Hippolyte I, Perrier X, Xia L, Caig V, Evers M, Huttner E, Kilian A, Glaszmann J-C
JournalTheor Appl Genet
Volume119
Issue6
Pagination1093-103
Date Published2009 Oct
ISSN1432-2242
KeywordsBiological Evolution, Diploidy, DNA, Plant, Genetic Markers, Genetic Variation, Genome, Plant, Genotype, Guadeloupe, Hybridization, Genetic, Musa, Nigeria, Oligonucleotide Array Sequence Analysis, Polymorphism, Genetic, Polyploidy, Sequence Analysis, DNA, Species Specificity
Abstract

Diversity Arrays Technology (DArT) is a DNA hybridisation-based molecular marker technique that can detect simultaneously variation at numerous genomic loci without sequence information. This efficiency makes it a potential tool for a quick and powerful assessment of the structure of germplasm collections. This article demonstrates the usefulness of DArT markers for genetic diversity analyses of Musa spp. genotypes. We developed four complexity reduction methods to generate DArT genomic representations and we tested their performance using 48 reference Musa genotypes. For these four complexity reduction methods, DArT markers displayed high polymorphism information content. We selected the two methods which generated the most polymorphic genomic representations (PstI/BstNI 16.8%, PstI/TaqI 16.1%) to analyze a panel of 168 Musa genotypes from two of the most important field collections of Musa in the world: Cirad (Neufchateau, Guadeloupe), and IITA (Ibadan, Nigeria). Since most edible cultivars are derived from two wild species, Musa acuminata (A genome) and Musa balbisiana (B genome), the study is restricted mostly to accessions of these two species and those derived from them. The genomic origin of the markers can help resolving the pedigree of valuable genotypes of unknown origin. A total of 836 markers were identified and used for genotyping. Ten percent of them were specific to the A genome and enabled targeting this genome portion in relatedness analysis among diverse ploidy constitutions. DArT markers revealed genetic relationships among Musa genotype consistent with those provided by the other markers technologies, but at a significantly higher resolution and speed and reduced cost.

DOI10.1007/s00122-009-1111-5
Alternate JournalTheor. Appl. Genet.
PubMed ID19693484
Showing 40 of 50 accessions
Accession Name Pictures Accession number Species / Group SubSpecies / SubGroup Origin Collection Available for distribution
Kluai Tiparot ITC0652 ABB Unknown Unknown ITC
Safet Velchi ITC0245 AB subgr. Ney Poovan India ITC
Figue Pomme Géante ITC0769 AAB subgr. Silk Unknown ITC
Namwa Khom ITC0659 ABB subgr. Pisang Awak Thailand ITC
Foconah ITC0649 AAB subgr. Pome Unknown ITC
Agutay ITC1028 acuminata Unknown Unknown ITC
Calcutta 4 ITC0249 acuminata subsp. burmannicoides India ITC
Zebrina ITC1177 acuminata subsp. zebrina Indonesia ITC
Pelipita ITC0472 ABB Unknown Philippines ITC
Pisang Jari Buaya ITC0312 AA subgr. Pisang Jari Buaya Malaysia ITC
Khae (Phrae) ITC0660 acuminata subsp. siamea Thailand ITC
Banksii ITC0623 acuminata subsp. banksii Papua New Guinea ITC
Petite Naine ITC0654 AAA subgr. Cavendish Unknown ITC
Pisang Ceylan ITC1441 AAB subgr. Mysore Unknown ITC
Pisang Rajah ITC0243 AAB subgr. Nendra Padaththi Unknown ITC
Prata ana ITC0962 AAB subgr. Pome Unknown ITC
Leite ITC0277 AAA subgr. Rio Unknown ITC
Tomolo ITC1187 AA Unknown Papua New Guinea ITC
Pisang Raja Bulu ITC0843 AAB subgr. Pisang Raja Indonesia ITC
Pisang Mas ITC0653 AA subgr. Sucrier Malaysia ITC
Monjet ITC0462 AA Unknown Papua New Guinea ITC
Pisang Bakar ITC1064 AAA subgr. Ambon Indonesia ITC
Tani ITC1120 balbisiana Unknown Unknown ITC
Ice cream ITC0020 ABB subgr. Ney Mannan Gabon ITC
Dole ITC0767 ABB subgr. Bluggoe Unknown ITC
Borneo ITC0253 acuminata subsp. microcarpa Malaysia ITC
Long Tavoy ITC0283 acuminata subsp. burmannica Unknown ITC
Gros Michel ITC0484 AAA subgr. Gros Michel Unknown ITC
Honduras ITC0247 balbisiana Unknown Unknown ITC
Yangambi KM5 ITC1123 AAA subgr. Ibota Unknown ITC
Grande Naine PT-BA-00104 AAA subgr. Cavendish Unknown CIRAD
Yawa 2
ITC1238 ABBT Unknown Papua New Guinea ITC
Wompa
ITC1152 AS Unknown Papua New Guinea ITC
Singapuri
ITC0248 balbisiana Unknown Unknown ITC
Lal Velchi
PT-BA-00172 balbisiana Unknown Unknown CIRAD
Poyo
PT-BA-00346 AAA subgr. Cavendish Unknown CIRAD
Popoulou
ITC0335 AAB subgr. Maia Maoli/Popoulu Unknown ITC
Monthan
ITC0046 ABB subgr. Monthan Unknown ITC
Intokatoke
ITC0082 AAA subgr. Mutika/Lujugira Burundi ITC
Kunnan
ITC1034 AB subgr. Ney Poovan Unknown ITC

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