Conventional breeding strategies to enhance the sustainability of &lt;i&gt;Musa&lt;/i&gt; biodiversity conservation for endemic cultivars

Pillay, Michael; Ssebuliba, R.; Hartman, James B.; Vuylsteke, D; Talengera, David; Tushemereirwe, W. K.

doi:10.4314/acsj.v12i1.27663

Cited by 11 publications

(9 citation statements)

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“…'Calcutta 4' was chosen for sequencing as it has been used extensively as a model genotype in previous molecular studies [ 5 , 6 , 12 , 17 - 19 ]. Moreover, this clone is being used in various banana breeding programs as a source of diseases resistance [ 20 , 21 ]. A sequencing run of nuclear DNA on the GS FLX platform (454 Life Sciences/Roche) resulted in 477,699 reads with average length of 206 bp, providing a total of 98,538,911 bp of sequence data.…”

Section: Resultsmentioning

confidence: 99%

Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing

et al. 2010

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BackgroundBananas and plantains (Musa spp.) are grown in more than a hundred tropical and subtropical countries and provide staple food for hundreds of millions of people. They are seed-sterile crops propagated clonally and this makes them vulnerable to a rapid spread of devastating diseases and at the same time hampers breeding improved cultivars. Although the socio-economic importance of bananas and plantains cannot be overestimated, they remain outside the focus of major research programs. This slows down the study of nuclear genome and the development of molecular tools to facilitate banana improvement.ResultsIn this work, we report on the first thorough characterization of the repeat component of the banana (M. acuminata cv. 'Calcutta 4') genome. Analysis of almost 100 Mb of sequence data (0.15× genome coverage) permitted partial sequence reconstruction and characterization of repetitive DNA, making up about 30% of the genome. The results showed that the banana repeats are predominantly made of various types of Ty1/copia and Ty3/gypsy retroelements representing 16 and 7% of the genome respectively. On the other hand, DNA transposons were found to be rare. In addition to new families of transposable elements, two new satellite repeats were discovered and found useful as cytogenetic markers. To help in banana sequence annotation, a specific Musa repeat database was created, and its utility was demonstrated by analyzing the repeat composition of 62 genomic BAC clones.ConclusionA low-depth 454 sequencing of banana nuclear genome provided the largest amount of DNA sequence data available until now for Musa and permitted reconstruction of most of the major types of DNA repeats. The information obtained in this study improves the knowledge of the long-range organization of banana chromosomes, and provides sequence resources needed for repeat masking and annotation during the Musa genome sequencing project. It also provides sequence data for isolation of DNA markers to be used in genetic diversity studies and in marker-assisted selection.

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Section: Resultsmentioning

confidence: 99%

Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing

et al. 2010

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“…Cultivated bananas are mainly triploids. Banana breeding involves crossing fertile triploids with diploids to get tetraploids which are then crossed to diploid accessions to give triploid cultivars ( Pillay et al, 2004 ). In other plant species, the presence of different CENH3s from different parents in embryos has been observed to result in uniparental genome elimination, aneuploids, or stable hybrids ( Ravi and Chan, 2010 ; Kuppu et al, 2015 ; Maheshwari et al, 2015 ; Tan et al, 2015 ; Kelliher et al, 2016 ).…”

Section: Discussionmentioning

confidence: 99%

Expressed Centromere Specific Histone 3 (CENH3) Variants in Cultivated Triploid and Wild Diploid Bananas (Musa spp.)

et al. 2017

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Centromeres are specified by a centromere specific histone 3 (CENH3) protein, which exists in a complex environment, interacting with conserved proteins and rapidly evolving satellite DNA sequences. The interactions may become more challenging if multiple CENH3 versions are introduced into the zygote as this can affect post-zygotic mitosis and ultimately sexual reproduction. Here, we characterize CENH3 variant transcripts expressed in cultivated triploid and wild diploid progenitor bananas. We describe both splice- and allelic-[Single Nucleotide Polymorphisms (SNP)] variants and their effects on the predicted secondary structures of protein. Expressed CENH3 transcripts from six banana genotypes were characterized and clustered into three groups (MusaCENH-1A, MusaCENH-1B, and MusaCENH-2) based on similarity. The CENH3 groups differed with SNPs as well as presence of indels resulting from retained and/or skipped exons. The CENH3 transcripts from different banana genotypes were spliced in either 7/6, 5/4 or 6/5 exons/introns. The 7/6 and the 5/4 exon/intron structures were found in both diploids and triploids, however, 7/6 was most predominant. The 6/5 exon/introns structure was a result of failure of the 7/6 to splice correctly. The various transcripts obtained were predicted to encode highly variable N-terminal tails and a relatively conserved C-terminal histone fold domain (HFD). The SNPs were predicted in some cases to affect the secondary structure of protein by lengthening or shorting the affected domains. Sequencing of banana CENH3 transcripts predicts SNP variations that affect amino acid sequences and alternatively spliced transcripts. Most of these changes affect the N-terminal tail of CENH3.

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“…India is the most productive, producing 26.2 million tons of fruits in 2008, with a yield of 3,698 kg/ha (INIBAP 2000;FAOSTAT 2008). Long generation time, various levels of ploidy, lack of genetic variability, and sterility of most edible cultivars have hampered the development of disease-resistant Musa by conventional breeding (Stover and Buddenhagen 1986;Stover and Simmonds 1987;Swennen and Vuylsteke 1993;Musoke et al 1999;Pillay et al 2004;Tripathi et al 2004). In vitro micropropagation has played a key role in clonal propagation of banana for obtaining large numbers of homogenous plants and breeding of plantains and bananas (Pierik 1987;Rowe and Rosales 1996;Vuylsteke et al 1997;Kalimuthu et al 2007;Al-Amin et al 2009).…”

Section: Introductionmentioning

confidence: 98%

An efficient protocol for large-scale plantlet production from male floral meristems of Musa spp. cultivars Virupakshi and Sirumalai

Shelake

Kathithachalam

Murugan

2011

In Vitro Cell.Dev.Biol.-Plant

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In vitro propagation has played a key role for obtaining large numbers of virus free, homogenous plants, and for breeding of plantains and bananas (Musa spp.). Explant sources utilized for banana micropropagation include suckers, shoot tips, and floral buds. The present study employed male floral meristems as explant material for micropropagation of hill banana ecotypes (AAB) 'Virupakshi' and 'Sirumalai.' Immature male floral buds were collected from healthy plants from hill banana growing areas. Exposure of explants to ethyl alcohol (70%, v/v) for 30 s, then mercuric chloride (0.1%, w/v) for 30 s, followed by three independent rinses of 5 min each in autoclaved, double-distilled water satisfactorily reduced the contamination. Male floral bud explants were cultured on Murashige and Skoog (MS) basal medium supplemented with different combinations of 6-benzylaminopurine (BAP), coconut water, naphthaleneacetic acid, gibberellic acid, and additional supplements. MS medium supplemented with 5 mg l −1 BAP and coconut water (15%) was the most efficient media for shoot initiation and multiple shoot formation (15 shoots from a single part of a floral bud). The best response for shoot elongation was obtained using the combination of basal MS, 5 mg l −1 BAP, 1 mg l −1 naphthaleneacetic acid and 1.5 mg l −1 gibberellic acid. Regenerated shoots were rooted in basal MS medium within 15-20 d. The rooted plantlets were transferred to a soil mixture and maintained at a temperature of 25±2°C for 10 d and then at room temperature (30-32°C) for 2 wk, before transferring to a greenhouse. The regenerated plantlets showed 100% survival.

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Conventional breeding strategies to enhance the sustainability of <i>Musa</i> biodiversity conservation for endemic cultivars

Cited by 11 publications

References 0 publications

Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing

Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing

Expressed Centromere Specific Histone 3 (CENH3) Variants in Cultivated Triploid and Wild Diploid Bananas (Musa spp.)

An efficient protocol for large-scale plantlet production from male floral meristems of Musa spp. cultivars Virupakshi and Sirumalai

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