In silico identification and characterization of putative differentially expressed genes involved in common bean (Phaseolus vulgaris L.) seed development

Abid, Ghassen; Muhovski, Yordan; Jacquemin, Jean-Marie; Mingeot, Dominique; Sassı, Khaled; Toussaint, André; Baudoin, Jean-Pierre

doi:10.1007/s11240-011-9986-7

Cited by 4 publications

(3 citation statements)

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“…A similar delayed response was reported in embryo development of EMS-mutagenized Phaseolus vulgaris L. 57 .…”

Section: Discussionsupporting

confidence: 83%

Mutagenic Effects of Ethyl Methanesulfonate on Morphological and Growth Characteristics of Neolamarckia cadamba Plantlets

Dalin¹,

Ho²,

Ling³

2022

Asian J. of Plant Sciences

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Background and Objective: Neolamarckia cadamba (Roxb.) Bosser is an economically important timber species used for light construction due to its light hardwood characteristic. Ethyl methanesulfonate (EMS) is a widely used chemical mutagen in plants as it gives a high frequency of point mutations. Hence, this study aimed to determine the lethal concentration 50 (LC 50 ) of EMS and the mutagenic effects of EMS on growth characteristics and morphological variations of N. cadamba derived from nodal explants. Materials and Methods: Seeds derived from the candidate plus tree N5 were germinated in vitro. The nodal explants excised from the plantlets were used as the material for in vitro mutagenesis with different concentrations of EMS (0.1, 0.3, 0.6 and 1%) and durations (1, 2, 3 and 4 hrs). Results: The findings showed that the survival percentage was significantly reduced as both EMS concentration and treatment duration increased. The LC 50 was 1.3% for 2 hrs, 0.4% for 3 hrs and 0.3% for 4 hrs. Various responses were observed in the EMS-treated explants. These include reduced and slower shoot induction, reduced number of shoot formations, reduced callus formation and lower plant height. Morphological abnormalities were also identified among the survived explants, such as unifoliate orbicular leaves, pointy leaves, small apical leaves, stunted shoot growth and distorted shoot formation. Conclusion: The present findings show that nodal explants can be used for in vitro EMS mutagenesis besides seeds as the most widely used material for mutation study. The putative mutants derived from this study could be used for future breeding and genomics research of N. cadamba.

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“…A similar delayed response was reported in embryo development of EMS-mutagenized Phaseolus vulgaris L. 57 .…”

Section: Discussionsupporting

confidence: 83%

Mutagenic Effects of Ethyl Methanesulfonate on Morphological and Growth Characteristics of Neolamarckia cadamba Plantlets

Dalin¹,

Ho²,

Ling³

2022

Asian J. of Plant Sciences

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“…Expressed sequence tag (EST) libraries are useful resources for mapping of expressed genes [36] , [37] as well as for providing data for comparisons with related species such as soybean [38] or other plant model organisms such as Arabidopsis and rice [24] . Some EST libraries were developed to identify bean genes related to response to biotic and abiotic stresses such as bean rust [39] , drought, low soil phosphorus, and high soil aluminum toxicities [40] , [41] , [42] , as well as genes expressed during the development of pods, leaves [42] , and seeds [43] .…”

Section: Introductionmentioning

confidence: 99%

Dissecting Phaseolus vulgaris Innate Immune System against Colletotrichum lindemuthianum Infection

et al. 2012

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BackgroundThe genus Colletotrichum is one of the most economically important plant pathogens, causing anthracnose on a wide range of crops including common beans (Phaseolus vulgaris L.). Crop yield can be dramatically decreased depending on the plant cultivar used and the environmental conditions. This study aimed to identify potential genetic components of the bean immune system to provide environmentally friendly control measures against this fungus.Methodology and Principal FindingsAs the common bean is not amenable to reverse genetics to explore functionality and its genome is not fully curated, we used putative Arabidopsis orthologs of bean expressed sequence tag (EST) to perform bioinformatic analysis and experimental validation of gene expression to identify common bean genes regulated during the incompatible interaction with C. lindemuthianum. Similar to model pathosystems, Gene Ontology (GO) analysis indicated that hormone biosynthesis and signaling in common beans seem to be modulated by fungus infection. For instance, cytokinin and ethylene responses were up-regulated and jasmonic acid, gibberellin, and abscisic acid responses were down-regulated, indicating that these hormones may play a central role in this pathosystem. Importantly, we have identified putative bean gene orthologs of Arabidopsis genes involved in the plant immune system. Based on experimental validation of gene expression, we propose that hypersensitive reaction as part of effector-triggered immunity may operate, at least in part, by down-regulating genes, such as FLS2-like and MKK5-like, putative orthologs of the Arabidopsis genes involved in pathogen perception and downstream signaling.Conclusions/SignificanceWe have identified specific bean genes and uncovered metabolic processes and pathways that may be involved in the immune response against pathogens. Our transcriptome database is a rich resource for mining novel defense-related genes, which enabled us to develop a model of the molecular components of the bean innate immune system regulated upon pathogen attack.

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“…Differentiation of plant cells has been described as a multistep process involving many morphological, histological and biochemical changes (Stange 1965;Braun 1978;Abid et al 2011). At the heart of this process is the orchestrated modulation of protein expression.…”

Section: Introductionmentioning

confidence: 99%

Morphological and proteomic analyses of sugar beet cultures and identifying putative markers for cell differentiation

Pavoković

Poljuha²,

Horvatić

et al. 2011

Plant Cell Tiss Organ Cult

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Normal (N), habituated nonorganogenic (HNO), and tumour (T) sugar beet cell lines were analysed in order to establish specific patterns of extracellular proteins and identify protein markers that might explain the distinct phenotypical characteristics. Electron microscopy showed that the ultrastructure of N cells corresponds to that of parenchyma cells, and that these cells contain plastids with large starch grains. HNO and T cells had enlarged, lobed nuclei with an increased number of nucleoli; the number of nuclei in HNO cells was greater than in T cells. The T plastids were elongated, with reduced thylakoids and abundant phytoferritin deposits, while HNO plastids were small and vacuolated, with an irregular, underdeveloped thylakoid system. The extracellular proteome of the cells was separated by sodium dodecyl sulphate polyacrylamide gel electrophoresis. Greater differences in protein expression were observed between the HNO and N lines than between the T and N lines. Sixteen of the most prominent bands differentially expressed among the cell lines were cut out from the gel and analyzed by mass spectrometry. Cell wall-modifying enzymes were identified, including a peroxidase whose expression was twofold higher in N and T tissue than in HNO tissue; pectinesterase, which was expressed at a level threefold lower in the T line than in the other cell lines; and xyloglucan endotransglucosylase, which was expressed at a level sixfold higher in HNO and T tissue. Three proteins belonged to the chitinase gene family and their expression was higher in HNO and T tissue than in N tissue. The differential expression of these proteins suggests that these play a role in cell line-specific cell wall composition and cell-to-cell adhesion.

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In silico identification and characterization of putative differentially expressed genes involved in common bean (Phaseolus vulgaris L.) seed development

Cited by 4 publications

References 56 publications

Mutagenic Effects of Ethyl Methanesulfonate on Morphological and Growth Characteristics of Neolamarckia cadamba Plantlets

Mutagenic Effects of Ethyl Methanesulfonate on Morphological and Growth Characteristics of Neolamarckia cadamba Plantlets

Dissecting Phaseolus vulgaris Innate Immune System against Colletotrichum lindemuthianum Infection

Morphological and proteomic analyses of sugar beet cultures and identifying putative markers for cell differentiation

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