Mitochondrial Genome Sequence of the Legume Vicia faba

Negruk, V. I.

doi:10.3389/fpls.2013.00128

Cited by 29 publications

(21 citation statements)

References 45 publications

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“…The frequency of SSRs in pigeonpea mitochondrial genome observed during the present study was relatively low, when compared with that in mitochondrial genomes of cereals (Rajendrakumar et al 2007(Rajendrakumar et al , 2008. In the case of legumes other than pigeonpea, the mitochondrial genomes of mung bean (Vigna radiata) (Alverson et al 2011), faba bean (Negruk 2013) and soybean (Chang et al 2013) have been sequenced. However, SSRs in the mitochondrial genomes of these above other legumes have yet to be discovered.…”

Section: Discussionmentioning

confidence: 99%

Mitochondrial SSRs and their utility in distinguishing wild species, CMS lines and maintainer lines in pigeonpea (Cajanus cajan L.)

et al. 2015

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Analysis of the pigeonpea mitochondrial genome sequence identified 25 SSRs. Mononucleotide SSR motifs were the most abundant repeats followed by dinucleotide and trinucleotide repeats. Primer pairs could be designed for 24 SSRs, 23 of which were polymorphic amongst the 22 genotypes consisting of cytoplasmic male sterile (CMS or A) line, maintainer or B line and wild Cajanus species representing six different CMS systems viz., A 1 , A 2 , A 4 , A 5 , A 6 and A 8 . These markers amplified a total of 107 alleles ranging from 2 to 10 with an average of 4.65 alleles per locus. The polymorphic information content for these markers ranged from 0.09 to 0.84 with an average of 0.52 per marker. Hence, the present study adds a novel set of 24 mitochondrial SSR markers to the markers repository in pigeonpea, which would be useful to distinguish the genotypes based on mitochondrial genome types in evolutionary and phylogenetic studies.

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Section: Discussionmentioning

confidence: 99%

Mitochondrial SSRs and their utility in distinguishing wild species, CMS lines and maintainer lines in pigeonpea (Cajanus cajan L.)

et al. 2015

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“…Faba bean is a diploid outcrossing species (2n = 12) with a "giant genome" 10 of approximately 13 Gb distributed on six chromosomes. The high content in transposable elements 11 complexifies the faba bean genome assembly and map-based cloning. Most of the linkage maps generated so far have a low to medium saturation and are based on morphological, isozyme, restriction fragment length polymorphism (RFLP), random amplified polymorphic DNA (RAPD), sequence characterized amplified region (SCAR), intron targeted amplified polymorphism (ITAP), simple sequence repeat (SSR) and low-density single-nucleotide polymorphism (SNP) markers [12][13][14][15][16][17][18][19][20][21] .…”

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Development of new genetic resources for faba bean (Vicia faba L.) breeding through the discovery of gene-based SNP markers and the construction of a high-density consensus map

Carrillo‐Perdomo

Vidal

Kreplak

et al. 2020

Sci Rep

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faba bean (Vicia faba L.) is a pulse crop of high nutritional value and high importance for sustainable agriculture and soil protection. With the objective of identifying gene-based Snps, transcriptome sequencing was performed in order to reduce faba bean genome complexity. A set of 1,819 genebased Snp markers polymorphic in three recombinant line populations was selected to enable the construction of a high-density consensus genetic map encompassing 1,728 markers well distributed in six linkage groups and spanning 1,547.71 cM with an average inter-marker distance of 0.89 cM. orthology-based comparison of the faba bean consensus map with legume genome assemblies highlighted synteny patterns that partly reflected the phylogenetic relationships among species. Solid blocks of macrosynteny were observed between faba bean and the most closely-related sequenced legume species such as pea, barrel medic or chickpea. Numerous blocks could also be identified in more divergent species such as common bean or cowpea. the genetic tools developed in this work can be used in association mapping, genetic diversity, linkage disequilibrium or comparative genomics and provide a backbone for map-based cloning. This will make the identification of candidate genes of interest more efficient and will accelerate marker-assisted selection (MAS) and genomic-assisted breeding (GAB) in faba bean.Legume crops serve as a source of food and feed. They also play an important role in sustainable agriculture because of their ability to improve soil fertility by fixing atmospheric nitrogen and increasing crop yield when used in crop rotation with cereals or intercropping 1 . In particular, faba bean (Vicia faba L.; Vf) is a primary ingredient of daily meals in both developing and industrialized countries due to its high content in proteins, carbohydrates, dietary fibers and micronutrients 2,3 . It is the most yielding pulse crop after field pea. However, its yield is still about half that of wheat, indicating that great breeding efforts are still needed 4 . Faba bean yield is greatly affected by environmental conditions, especially extreme temperatures, drought and acidity 5,6 . In addition, diseases such as chocolate spot (Botrytis fabae S. or B. cinerea P.) or ascochyta blight (Ascochyta fabae S.), viruses such as faba bean necrotic viruses, parasitic weeds of Orobanche genus and pests such as leaf weevil (Sitona lineatus L.), aphids (Aphis fabae S., A. craccivora K., Acyrthosiphon pisum H., Myzus persicae S.) or seed weevils (Bruchus rufimanus B.) considerably reduce its yield and affect the commercialization of the grains 5,7 . Other factors limiting the production of faba bean include the overproduction of flowers resulting in a variable fertilization

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“…Beauv., and Oryza sativa L. sequencing] (Kaur et al, 2012), and has been used to identify quantitative trait loci for Ascochyta blight resistance (Kaur et al, 2014). In addition, the mitochondrial genome has been sequenced (Negruk, 2013).…”

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Faba Bean: Transcriptome Analysis from Etiolated Seedling and Developing Seed Coat of Key Cultivars for Synthesis of Proanthocyanidins, Phytate, Raffinose Family Oligosaccharides, Vicine, and Convicine

2015

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Faba bean (Vicia faba L.) has been little examined from a genetic or genomic perspective despite its status as an established food and forage crop with some key pharmaceutical factors such as vicine and convicine (VC), which provoke severe haemolysis in genetically susceptible humans. We developed next-generation sequencing libraries to maximize information to elucidate the VC pathway or relevant markers as well as other genes of interest for the species. One selected cultivar, A01155, lacks synthesis of the favism-provoking factors, VC, and is low in tannin, while two cultivars, SSNS-1 and CDC Fatima, are wild-type for these factors. Tissues (5-to 6-d-old root and etiolated shoot and developing seed coat) were selected to maximize the utility and breadth of the gene expression profile. Approximately 1.2  10 6 expressed transcripts were sequenced and assembled into contigs. The synthetic pathways for phosphatidylinositol or phytate, the raffinose family oligosaccharides, and proanthocyanidin were examined and found to contain nearly a full complement of the synthetic genes for these pathways. A severe deficiency in anthocyanidin reductase expression was found in the low-tannin cultivar A01155. Approximately 5300 variants, including 234 variants specific to one of the three cultivars, were identified. Differences in expression and variants potentially related to VC synthesis were analyzed using strategies exploiting differences in expression between cultivars and tissues. These sequences should be of high utility for marker-assisted selection for the key traits vicine, convicine, and proanthocyanidin, and should contribute to the scant genetic maps available for this species. C ultivated faba bean (Vicia faba L.) is widely used as human food, especially in Europe, Northern Africa, and China. In view of its superior yield and feeding value over field pea (Pisum sativum L.) or other legumes, it is also widely used as animal feed for a variety of species, and it is one of the most effective nitrogen-fixing legumes (Bremer et al., 1988). As well, immature faba bean is a high-quality vegetable, supplying well-balanced protein and carbohydrate together with numerous antioxidants and essential vitamins. It is of particular value for lipid-restricted diets, as it contains less than 3% seed lipid, which is low in saturated fatty acids (unpublished results). As a legume suited to yield well in cooler conditions, it has potential for major expansion in Western Canada and elsewhere.The importance of faba bean resides not only in their nutritional value but also in the fact that they contain medically important components including vicine and convicine (VC) (Ray and Georges, 2010). These pyrimidine derivatives constitute a rare class of antinutritional factors almost exclusive to faba bean, although also occurring in other Vicia species. The aglycones of

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Mitochondrial Genome Sequence of the Legume Vicia faba

Cited by 29 publications

References 45 publications

Mitochondrial SSRs and their utility in distinguishing wild species, CMS lines and maintainer lines in pigeonpea (Cajanus cajan L.)

Mitochondrial SSRs and their utility in distinguishing wild species, CMS lines and maintainer lines in pigeonpea (Cajanus cajan L.)

Development of new genetic resources for faba bean (Vicia faba L.) breeding through the discovery of gene-based SNP markers and the construction of a high-density consensus map

Faba Bean: Transcriptome Analysis from Etiolated Seedling and Developing Seed Coat of Key Cultivars for Synthesis of Proanthocyanidins, Phytate, Raffinose Family Oligosaccharides, Vicine, and Convicine

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