Mapping Snap Bean Pod and Color Traits, in a Dry Bean × Snap Bean Recombinant Inbred Population

Hagerty, Christina H.; Cuesta‐Marcos, Alfonso; Cregan, Perry B.; Song, Qijian; McClean, Phil; Myers, James R.

doi:10.21273/jashs.141.2.131

Cited by 42 publications

(85 citation statements)

References 22 publications

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“…() per se was not necessarily strongly correlated with shattering ability. Working within the domesticated gene pool, a QTL that controls 32% of the total genetic variation for string‐to‐pod length ratio was found on chr 2 of common bean (Hagerty et al ., ). It can also be speculated that qPDV‐5.1 alleles are ‘complex alleles’; i.e.…”

Section: Discussionmentioning

confidence: 97%

“…Also, QTLs for pod height, width, and wall fiber and thickness were found clustered on chr 4, and these explained 26%, 18%, 21%, and 16% of the genetic variation of each of these respective traits. Another QTL for pod length was found on chr 9 that explained 5% of the genetic variation (Hagerty et al ., ).…”

Section: Introductionmentioning

confidence: 97%

“…Hagerty et al . () used a dry bean × snap bean recombinant inbred population to map the snap bean pod and color traits, and a QTL for the string‐to‐pod‐length ratio found on chr 2 explained 32% of the total genetic variation. Also, QTLs for pod height, width, and wall fiber and thickness were found clustered on chr 4, and these explained 26%, 18%, 21%, and 16% of the genetic variation of each of these respective traits.…”

Section: Introductionmentioning

confidence: 99%

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Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

et al. 2019

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The complete or partial loss of shattering ability occurred independently during the domestication of several crops. Therefore, the study of this trait can provide an understanding of the link between phenotypic and molecular convergent evolution. The genetic dissection of 'pod shattering' in Phaseolus vulgaris is achieved here using a population of introgression lines and next-generation sequencing techniques. The 'occurrence' of the indehiscent phenotype (indehiscent versus dehiscent) depends on a major locus on chromosome 5. Furthermore, at least two additional genes are associated with the 'level' of shattering (number of shattering pods per plant: low versus high) and the 'mode' of shattering (non-twisting versus twisting pods), with all of these loci contributing to the phenotype by epistatic interactions. Comparative mapping indicates that the major gene identified on common bean chromosome 5 corresponds to one of the four quantitative trait loci for pod shattering in Vigna unguiculata. None of the loci identified comprised genes that are homologs of the known shattering genes in Glycine max. Therefore, although convergent domestication can be determined by mutations at orthologous loci, this was only partially true for P. vulgaris and V. unguiculata, which are two phylogenetically closely related crop species, and this was not the case for the more distant P. vulgaris and G. max. Conversely, comparative mapping suggests that the convergent evolution of the indehiscent phenotype arose through mutations in different genes from the same underlying gene networks that are involved in secondary cell-wall biosynthesis and lignin deposition patterning at the pod level.

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Section: Discussionmentioning

confidence: 97%

Section: Introductionmentioning

confidence: 97%

Section: Introductionmentioning

confidence: 99%

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Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

et al. 2019

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“…Traits such as seed and pod size and yield are complex, involving multiple genes and numerous epistatic interactions, but loci involved have been identified repeatedly, in various backgrounds, and with increasingly tight genetic bounds (González et al 2018). For example, pod size and pod length QTLs have been reported in similar locations, including LG01, LG02, and LG04 (Koinange et al 1996;Hagerty et al 2016;Yuste-Lisbona et al 2014).…”

Section: Linkage and Association Mapping Resourcesmentioning

confidence: 99%

A review of breeding objectives, genomic resources, and marker-assisted methods in common bean (Phaseolus vulgaris L.)

Assefa¹,

et al. 2019

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Common bean (Phaseolus vulgaris L.), one of the most important grain legume crops for direct human consumption, faces many challenges as a crop. Domesticated from wild relatives that inhabit a relatively narrow ecological niche, common bean faces a wide range of biotic and abiotic constraints within its diverse agroecological settings. Biotic stresses impacting common bean include numerous bacterial, fungal, and viral diseases and various insect and nematode pests, and abiotic stresses include drought, heat, cold, and soil nutrient deficiencies or toxicities. Breeding is often local, focusing on improvements in responses to biotic and abiotic stresses that are particular challenges in certain locations and needing to respond to conditions such as day-length regimes. This review describes the major breeding objectives for common bean, followed by a description of major genetic and genomic resources, and an overview of current and prospective marker-assisted methods in common bean breeding. Improvements over traditional breeding methods in CB can result from the use of different approaches. Several important germplasm collections have been densely genotyped, and relatively inexpensive SNP genotyping platforms enable implementation of genomic selection and related markerassisted breeding approaches. Also important are sociological insights related to demand-led breeding, which considers local value chains, from farmers to traders to retailers and consumers.

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“…Within each of these two major domesticated gene pools, a wide range of fruit morphologies adds to the variation in developmental rates [26,27]. Thus, common bean pods are highly variable and range from tiny single-seeded forms to many-seeded fruits, from fruits with reduced wall fiber, absence of suture strings (stringless), succulent walls, and completely indehiscent (for example snap bean varieties) to dehiscent, with the presence of fibers in both their sutures (strings) and walls [28][29][30]. The synchronous growth and development of the fruit and the seed structures are essential for the formation of viable seeds and of interest in breeding programs for common bean.…”

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confidence: 99%

Transcriptional Dynamics and Candidate Genes Involved in Pod Maturation of Common Bean (Phaseolus vulgaris L.)

Gómez-Martín

Capel

González

et al. 2020

Plants

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Pod maturation of common bean relies upon complex gene expression changes, which in turn are crucial for seed formation and dispersal. Hence, dissecting the transcriptional regulation of pod maturation would be of great significance for breeding programs. In this study, a comprehensive characterization of expression changes has been performed in two common bean cultivars (ancient and modern) by analyzing the transcriptomes of five developmental pod stages, from fruit setting to maturation. RNA-seq analysis allowed for the identification of key genes shared by both accessions, which in turn were homologous to known Arabidopsis maturation genes and furthermore showed a similar expression pattern along the maturation process. Gene-expression changes suggested a role in promoting an accelerated breakdown of photosynthetic and ribosomal machinery associated with chlorophyll degradation and early activation of alpha-linolenic acid metabolism. A further study of transcription factors and their DNA binding sites revealed three candidate genes whose functions may play a dominant role in regulating pod maturation. Altogether, this research identifies the first maturation gene set reported in common bean so far and contributes to a better understanding of the dynamic mechanisms of pod maturation, providing potentially useful information for genomic-assisted breeding of common bean yield and pod quality attributes.Plants 2020, 9, 545 2 of 20 metabolites such as carotenoids and anthocyanins [7][8][9][10][11]. Likewise, jasmonate promotes senescence and plays an important role in chlorophyll degradation [12,13], which is synthesized from alpha-linolenic acid [14,15], suggesting that the accumulation of this acid during maturation is responsible for stimulating chlorophyll loss [16]. In addition, the increased accumulation of antioxidant and monoterpene is also an important feature of the fruit maturation process [17][18][19].Like most species of the Fabaceae (also named as Leguminosae) family, common bean (Phaseolus vulgaris L.) produces dry fruits in the form of a pod, which is a photosynthetically active organ that encloses the developing seeds and protects them from pests and pathogens. Indeed, photosynthetically active pod tissue contributes to fuel seed growth with assimilates and nutrients [20]. As in most angiosperms, significant genetic, biochemical, and physiological changes take place during fruit maturation, which confers the functional and morphological properties of this plant organ. Unlike members of the Brassicaceae family that produce pods (siliques) derived from two fused carpels, legume pods are developed from a single carpel that emerges from the gynoecium after ovule fertilization. Subsequently, pods attain their maximum size through a growth phase caused by an active cell division and later cell expansion [21]. During the maturation phase, carbohydrate metabolism and amino acid biosynthesis are increased in pods, leading to the accumulation of storage compounds, mainly starch, total soluble amino acids, an...

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Mapping Snap Bean Pod and Color Traits, in a Dry Bean × Snap Bean Recombinant Inbred Population

Cited by 42 publications

References 22 publications

Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

A review of breeding objectives, genomic resources, and marker-assisted methods in common bean (Phaseolus vulgaris L.)

Transcriptional Dynamics and Candidate Genes Involved in Pod Maturation of Common Bean (Phaseolus vulgaris L.)

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