Development and characterisation of microsatellite markers for wild banana (<i>Musa balbisiana</i>)

Ravishankar, K. V.; Raghavendra, K. P.; Athani, V.; Rekha, A.; Sudeepa, K.; Bhavya, D.; Srinivas, V.; Ananad, L.

doi:10.1080/14620316.2013.11513013

Cited by 18 publications

(11 citation statements)

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“…Despite this profusion of markers, it was considerable that they still be far behind available genetic analyses in other important crop plants. Most of the SSR markers sets in bananas were mainly developed in M. acuminata (Crouch et al 1997;Kaemmer et al 1997;Lagoda et al 1998;Creste et al 2006;Miller et al 2010;Wang et al 2010), a few were done in M. balbisiana (Buhariwalla et al 2005;Ravishankar et al 2013), possibly due to the abundance of germplasms in the former species, whereas limited in the later.…”

Section: Introductionmentioning

confidence: 98%

Development of SSR markers from Musa balbisiana for genetic diversity analysis among Thai bananas

et al. 2016

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Bananas in Thailand have been surveyed by our team to be at least 140 cultivars in the plantations, 10 wild species and, 4 introduced species. To characterize the genetic relationship of species and cultivars, a set of novel SSR markers was developed. Totaling 53 clones containing SSR motifs were isolated from SSR-enriched library of wild Musa balbisiana Colla 'Tani' (BB). Selected positive clones were used to design 28 primer pairs for amplification of 12 wild and 82 cultivar accessions with genome designations AA, AB, AAA, AAB, ABB, and BBB. These SSR markers loci were homology searched to the banana genomes to map their locations. The seven-sets multiplex PCR approach using four fluorescent-labeled universal primers were utilized for cost effectiveness. Capillary fragment analysis yielded the accurate size of amplicons for evaluation of particular patterns for each cultivar. Phylogram and Structure analysis presented the specific genotype of genome groups (A and B genotypes, polyploid hybrid genomes) and cultivar groups. By A:B specific alleles ratio, accurate genome designations of hybrids can be determined. Additionally, a marker, characterized to be partial plastid ycf2 gene, indicated the maternal identification of hybrid cultivars. One SSR marker was also preliminary tested with some wild species and advised to be the candidate fingerprinting marker for species identification. In conclusion, SSR marker sets developed here proved their exploitation in detailed identity and relationship of cultivated bananas, which would be useful for genetic conservation and ongoing breeding programs in Thailand and other areas.

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Section: Introductionmentioning

confidence: 98%

Development of SSR markers from Musa balbisiana for genetic diversity analysis among Thai bananas

et al. 2016

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“…A high level of genetic diversity among durian types was observed in this study, partly due to the outbreeding nature of the species ( Asrul & Sarip, 2009 ). Such a level of genetic diversity was comparable to that of some cultivated fruit plants such as coconut ( Cocos nucifera , mean H E = 0.377; Liu et al, 2011 ), but lower than that found in other wild fruit species such as wild banana ( Musa balbisiana , mean H E = 0.817; Ravishankar et al, 2013 ). This is reasonable as only certain durian types are preferentially grown.…”

Section: Discussionmentioning

confidence: 43%

Genetic variation and DNA fingerprinting of durian types in Malaysia using simple sequence repeat (SSR) markers

Siew

Tan

et al. 2018

PeerJ

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Durian (Durio zibethinus) is one of the most popular tropical fruits in Asia. To date, 126 durian types have been registered with the Department of Agriculture in Malaysia based on phenotypic characteristics. Classification based on morphology is convenient, easy, and fast but it suffers from phenotypic plasticity as a direct result of environmental factors and age. To overcome the limitation of morphological classification, there is a need to carry out genetic characterization of the various durian types. Such data is important for the evaluation and management of durian genetic resources in producing countries. In this study, simple sequence repeat (SSR) markers were used to study the genetic variation in 27 durian types from the germplasm collection of Universiti Putra Malaysia. Based on DNA sequences deposited in Genbank, seven pairs of primers were successfully designed to amplify SSR regions in the durian DNA samples. High levels of variation among the 27 durian types were observed (expected heterozygosity, HE = 0.35). The DNA fingerprinting power of SSR markers revealed by the combined probability of identity (PI) of all loci was 2.3×10−3. Unique DNA fingerprints were generated for 21 out of 27 durian types using five polymorphic SSR markers (the other two SSR markers were monomorphic). We further tested the utility of these markers by evaluating the clonal status of shared durian types from different germplasm collection sites, and found that some were not clones. The findings in this preliminary study not only shows the feasibility of using SSR markers for DNA fingerprinting of durian types, but also challenges the current classification of durian types, e.g., on whether the different types should be called “clones”, “varieties”, or “cultivars”. Such matters have a direct impact on the regulation and management of durian genetic resources in the region.

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“…Manuscript to be reviewed coconut (Cocos nucifera, mean H E =0.377; Liu et al, 2011), but lower than that found in other wild fruit species such as wild banana (Musa balbisiana, mean H E =0.817; Ravishankar et al, 2013). This is reasonable as only certain durian types are preferentially grown.…”

Section: Genetic Variationmentioning

confidence: 98%

Peer Review #1 of "Genetic variation and DNA fingerprinting of durian types in Malaysia using simple sequence repeat (SSR) markers (v0.1)"

2018

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Durian (Durio zibethinus) is one of the most popular tropical fruits in Asia. To date, 126 durian types have been registered with the Department of Agriculture in Malaysia based on phenotypic characteristics. Classification based on morphology is convenient, easy, and fast but it suffers from phenotypic plasticity as a direct result of environmental factors and age. To overcome the limitation of morphological classification, there is a need to carry out genetic characterization of the various durian types. Such data is important for the evaluation and management of durian genetic resources in producing countries. In this study, simple sequence repeat (SSR) markers were used to study the genetic variation in 27 durian types from the germplasm collection of Universiti Putra Malaysia. Based on DNA sequences deposited in Genbank, seven pairs of primers were successfully designed to amplify SSR regions in the durian DNA samples. High levels of variation among the 27 durian types were observed (expected heterozygosity, H E =0.35). The DNA fingerprinting power of SSR markers revealed by the combined probability of identity (PI) of all loci was 2.3×10-3. Unique DNA fingerprints were generated for 21 out of 27 durian types using five polymorphic SSR markers (the other two SSR markers were monomorphic). We further tested the utility of these markers by evaluating the clonal status of shared durian types from different germplasm collection sites, and found that some were not clones. The findings in this preliminary study not only shows the feasibility of using SSR markers for DNA fingerprinting of durian types, but also challenges the current classification of durian types, e.g. on whether the different types should be called "clones", "varieties", or "cultivars". Such matters have a direct impact on the regulation and management of durian genetic resource in the region.

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Development and characterisation of microsatellite markers for wild banana (Musa balbisiana)

Cited by 18 publications

References 0 publications

Development of SSR markers from Musa balbisiana for genetic diversity analysis among Thai bananas

Development of SSR markers from Musa balbisiana for genetic diversity analysis among Thai bananas

Genetic variation and DNA fingerprinting of durian types in Malaysia using simple sequence repeat (SSR) markers

Peer Review #1 of "Genetic variation and DNA fingerprinting of durian types in Malaysia using simple sequence repeat (SSR) markers (v0.1)"

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