AFLP characterization and genetic diversity analysis of Indian banana and plantain cultivars <i>(Musa</i> spp.)

Bhat, K. V.; Amaravathi, Y.; Gautam, Poonam; Velayudhan, K. C.

doi:10.1079/pgr200440

Cited by 11 publications

(11 citation statements)

References 26 publications

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“…Close genetic relationship among the cultivars, as well as somatic mutations, contribute further obstacles to the correct identification of the clones (Kahangi, 2002). Hence, molecular markers including microsatellites, RAPD, and AFLP have been used to characterize banana cultivars from Kenya, Bazil, and India (Creste et al, 2004;Onguso et al, 2004;Bhat et al, 2004).…”

Section: Discussionmentioning

confidence: 99%

Genome classification of banana cultivars from South India using IRAP markers

et al. 2005

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The banana cultivars are originated from the intra-and inter-specific hybridization of two wild diploid species, Musa acuminata Colla and Musa balbisiana Colla, contributing the A and B genomes, respectively. They are classified into genomic groups by scoring morphological features. Molecular markers provide a quick and reliable system of genome characterization and manipulation in breeding lines. In the present study a PCR based molecular marker specific for B genomes is been reported. The IRAP primer, designed based on the LTR sequence of banana Ty3-gypsy-like retroelement (Musa acuminata Monkey retrotransposon, AF 143332), was used to identify the B genome in the banana cultivars. Further a primer pair designed from B specific bands of Musa balbisiana 'Pisang Gala' was used to classify AAB and ABB cultivars in the collection. Among the 36 cultivars tested with this primer, the B specific band was absent in the AA and AAA cultivars (except in one AAA and AAB cultivar) but present in all other AB, AAB and ABB cultivars. Among the triploid AAB/ABB, the PCR products with B specific primers showed restriction pattern polymorphism with AluI. In ABB genomes the band intensity was high whereas low intensity band observed in AAB genomes. Four cultivars reported to have the ABB genome showed a pattern similar to AAB, and one cultivar reported to have AAA genome showed a pattern similar to ABB genome, suggesting missampling or misidentification. The primers used in this study are useful to identify the presence of B genome in banana cultivars, and band intensity may be a preliminary indicator of ploidy level of the B genome but needs further studies with competitive PCR for clarification.

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Section: Discussionmentioning

confidence: 99%

Genome classification of banana cultivars from South India using IRAP markers

et al. 2005

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“…It confirms the capacity of the plants to modify trait expression, as a consequence of environmental changes; this phenomenon is called phenotypic plasticity (DeWitt and Scheiner 2004). Although plasticity is a desirable attribute for plant adaptation, it confounds population characterization in genebanks (Lombard et al 2001;Nuel et al 2001;Bhat et al 2004). Thus, it is important to identify the most stable traits for morphological characterization.…”

Section: Comparison Of Means Between Years and Between Planting Datesmentioning

confidence: 99%

“…The choice of an appropriate molecular marker depends on many considerations, with no single approach optimal for studying infraspecific variation or for solving the needs of ex situ germplasm conservation (Spooner et al 2005), such as the identification of duplicate accessions and gaps in genebank collections or the development of effective regeneration systems. Important classes of DNA-based molecular markers, which have been used for genetic-diversity assessment, cultivar fingerprinting, and phylogenetic studies, include AFLPs, as well as restriction fragment length polymorphisms (RFLP), random amplified polymorphic DNA (RAPD), and single sequence repeats (SSR) (Brown et al 1996;Heslop-Harrison and Schwarzacher 1996;Penner 1996;Reiter 2001;de Vienne et al 2003;Bhat et al 2004). Briefly, AFLP is a PCR-based molecular-marker class (Vos et al 1995), typically considered within the group of dominant sequence polymorphisms (de Vienne et al 2003).…”

Section: Introductionmentioning

confidence: 99%

“…The AFLP technique seems to be more reliable than other PCR-based molecular markers (Reiter 2001). In addition, this technique has an option for high throughput by means of multiplexing primer pairs and automated fragment detection and scoring (Roldán-Ruiz et al 2000;Bhat et al 2004). Despite their utility for elucidating genetic relationships within plant species, molecular markers have not yet been applied to questions of infraspecific classification or fingerprinting in coriander.…”

Section: Introductionmentioning

confidence: 99%

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Assessing phenotypic, biochemical, and molecular diversity in coriander (Coriandrum sativum L.) germplasm

López

Widrlechner

Simon

et al. 2007

Genet Resour Crop Evol

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Our goals for this research were to elucidate phenotypic and biochemical diversity in coriander (Coriandrum sativum L.) populations maintained at the North Central Regional Plant Introduction Station in Ames, IA, and examine relationships between amplified fragment length polymorphism (AFLP) markers and patterns of phenotypic and biochemical diversity. Phenotypic and biochemical traits were evaluated, and analyses of variance and mean comparisons were performed on the resulting data sets. Euclidean distances from phenotypic (PD) and biochemical (BD) data were estimated, and modified Rogers' distances (RD) were estimated for 80 polymorphic AFLP markers. These data were subjected to cluster analyses (CA) and principal components analyses (PCA), to reveal patterns among populations, and to analyses of molecular variance (AMOVA) for grouping patterns from PD and BD by using the 80 polymorphic AFLP markers. Resulting phenotypic, biochemical, and molecular distance matrices were also compared by applying Mantel tests. Our results describe significant differences among populations for all the phenotypic traits, and dendrograms obtained from PD and BD revealed complex phenetic patterns, as did groups from PCA. The primary seed essential oils and nearly all fatty-acid components were identified and their abundance measured; the primary chemical constituents of corresponding PCA groups are described herein. Molecular evidence supported phenotypic and biochemical subgroups. However, variation attributed among subgroups and groups was very low (∼4-6%), while variation among populations within groups was intermediate (∼24-26%), and that within populations was large (∼69-70%), reflecting weak differentiation among subgroups and groups, which was confirmed by values for fixation indices. Phenotypic subgroups described in this study differed somewhat from previous infraspecific classifications. Weak correlations were found between the phenotypic and biochemical matrices and between the biochemical and AFLP matrices. No correlation was found between the phenotypic and AFLP matrices. These results may be related to coriander's phenotypic plasticity, its wide range in lifecycle duration, its predominantly allogamous reproductive biology, a human-selection process focused on special traits that may be controlled by few genes, and the widespread trade of coriander seeds as a spice, which may result in dynamic, poorly differentiated molecular variation, even when phenotypic and biochemical differentiation is easily documented. Abstract Our goals for this research were to elucidate phenotypic and biochemical diversity in coriander (Coriandrum sativum L.) populations maintained at the North Central Regional Plant Introduction Station in Ames, IA, and examine relationships between amplified fragment length polymorphism (AFLP) markers and patterns of phenotypic and biochemical diversity. Phenotypic and biochemical traits were evaluated, and analyses of variance and mean comparisons were performed on the resulting data sets. Eucli...

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“…Researchers have used several DNA fingerprinting techniques for the correct identification of plant species and cultivars. These DNA fingerprinting techniques have successfully used markers such as randomly amplified polymorphic DNA marker (RAPD) (Toral Ibañez et al, 2009;Ude et al, 2003;Gawel and Jarret, 1992), restriction fragment length polymorphism (RFLP) (Bhat et al, 1995), microsatellites (Grapin et al, 1998), inter simple sequence repeat (ISSR) (Godwin et al, 1997), and amplified fragment length polymorphism (AFLP) (Bhat et al, 2004;Ude et al, 2003). Among many researchers, AFLP is the marker technology of choice since it combines the reliability of classical restriction-based fingerprinting with the speed and convenience of polymerase chain reaction (PCR)-based marker techniques (Vos et al, 1995;Powell et al, 1996;Lu et al, 2002;Ude et al, 2002a;2002b).…”

Section: Introductionmentioning

confidence: 99%

Analysis of genetic diversity in banana cultivars (Musa cvs.) from the South of Oman using AFLP markers and classification by phylogenetic, hierarchical clustering and principal component analyses

Opara

Jacobson

Al-Saady

2010

J. Zhejiang Univ. Sci. B

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Banana is an important crop grown in Oman and there is a dearth of information on its genetic diversity to assist in crop breeding and improvement programs. This study employed amplified fragment length polymorphism (AFLP) to investigate the genetic variation in local banana cultivars from the southern region of Oman. Using 12 primer combinations, a total of 1094 bands were scored, of which 1012 were polymorphic. Eighty-two unique markers were identified, which revealed the distinct separation of the seven cultivars. The results obtained show that AFLP can be used to differentiate the banana cultivars. Further classification by phylogenetic, hierarchical clustering and principal component analyses showed significant differences between the clusters found with molecular markers and those clusters created by previous studies using morphological analysis. Based on the analytical results, a consensus dendrogram of the banana cultivars is presented.

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AFLP characterization and genetic diversity analysis of Indian banana and plantain cultivars (Musa spp.)

Cited by 11 publications

References 26 publications

Genome classification of banana cultivars from South India using IRAP markers

Genome classification of banana cultivars from South India using IRAP markers

Assessing phenotypic, biochemical, and molecular diversity in coriander (Coriandrum sativum L.) germplasm

Analysis of genetic diversity in banana cultivars (Musa cvs.) from the South of Oman using AFLP markers and classification by phylogenetic, hierarchical clustering and principal component analyses

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