Comparative Transcriptomic Analyses of Vegetable and Grain Pea (Pisum sativum L.) Seed Development

Liu, Na; Zhang, Gu-Wen; Xu, Shengchun; Mao, Weihua; Hu, Qizan; Gong, Yaming

doi:10.3389/fpls.2015.01039

Cited by 31 publications

(28 citation statements)

References 76 publications

(105 reference statements)

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“…These results suggested that these genes play a role in the sweet phenotype. At the same, the identified expression of these genes, associated with sucrose metabolism in the pea pericarp, was consistent with previous studies on pea seeds [25]. We also hypothesized that the traits of the pea pericarp could also affect the sweet traits of pea seeds.…”

Section: Discussionsupporting

confidence: 91%

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Identification of Differentially Expressed Genes Involved in the Molecular Mechanism of Pericarp Elongation and Differences in Sucrose and Starch Accumulation between Vegetable and Grain Pea (Pisum sativum L.)

Yang

et al. 2019

IJMS

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Pea (Pisum sativum L.), as a major source of plant protein, is becoming one of the major cultivated crop species worldwide. In pea, the pericarp is an important determinant of the morphological characteristics and seed yield. To investigate the molecular mechanism of pericarp elongation as well as sucrose and starch accumulation in the pods of different pea cultivars, we performed transcriptomic analysis of the pericarp of two types of pea cultivar (vegetable pea and grain pea) using RNA-seq. A total of 239.44 Gb of clean sequence data were generated, and were aligned to the reference genome of Pisum sativum L. In the two samples, 1935 differentially expressed genes (DEGs) were identified. Among these DEGs, three antioxidant enzyme superoxide dismutase (SOD) were detected to have higher expression levels in the grain pea pericarps at the pod-elongating stages. Otherwise, five peroxidase (POD)-encoding genes were detected to have lower expression levels in the vegetative pericarps at the development stage of pea pod growth. Furthermore, genes related to starch and sucrose metabolism in the pea pod, such as SUS, INV, FBA, TPI, ADPase, SBE, SSS, and GBSS, were found to be differentially expressed. The RNA-seq data were validated through real-time quantitative RT-PCR of 13 randomly selected genes. Our findings provide the gene expression profile of, as well as differential expression information on, the two pea cultivars, which will lay the foundation for further studies on pod development and nutrition accumulation in the pea and provide valuable information for pea cultivar improvement.

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Section: Discussionsupporting

confidence: 91%

“…Vegetable pea typically has a higher content of sugar than grain pea, so it is sweeter than grain pea [25]. This remarkable phenotype characteristic has led to the division of the food-oriented pea into two types (vegetable pea and grain pea).…”

Section: Discussionmentioning

confidence: 99%

Identification of Differentially Expressed Genes Involved in the Molecular Mechanism of Pericarp Elongation and Differences in Sucrose and Starch Accumulation between Vegetable and Grain Pea (Pisum sativum L.)

Yang

et al. 2019

IJMS

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“…The presence of r or rb or bsg genes results into accumulation of low level of starch and a high level of sucrose. Recently, Liu et al (2015) performed a comparative transcroptomic analysis of genes involved in sugar and starch biosynthesis in vegetables and reported differential expression of genes related soluble sugar and starch at late development stages. Validation of RNA-Seq data was done using real-time quantitative (RT-PCR) analysis for 30 randomly selected genes which seems to be useful in garden pea breeding.…”

Section: Genome Sequencing and Transcriptome Analysis For Quality Tramentioning

confidence: 99%

Advances in vegetable breeding for nutraceuticals and quality traits

Behera¹,

Singh²

2019

IJGPB

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Vegetable crops are rich in dietary micronutrients (minerals, vitamins), antioxidents and functional phytochemicals ‘nutraceuticals’. However, some of the elements are of public health concern such as β-carotene, iron, calcium and folic acid which attracts breeders’ interest to improve their content in food sources including vegetable crops so that their dietary intake could be increased and their deficiency problems reduced. Some nutraceutical compounds such as anthocyanin, β-carotene, lycopene and glucosinolates have been reported to play active role in health and their contents have been found more in beet root, cauliflower, carrot and broccoli, respectively. The attempts through conventional breeding methods have been slow and inadequate, hence new developments in molecular and biochemical diagnostics tools and techniques showed promise in improving the nutraceutical contents and other quality traits. Molecular markers, next generation sequencing, RNA interference (RNAi) and genetic engineering have great promise in reducing time and cost involved in quality breeding. The present review summarise attempts and potential of improving the nutraceuticals and quality traits in vegetable crops. Key words:.

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“…Read assembly for separate cultivars yielded 126,335 and 145,730 contigs, respectively, with 87% showing significant expression levels in both cultivars. Later on, Liu et al sequenced samples from pea seeds harvested at the stage of 10 and 25 days after pollination and assembled 77,273 unigenes [32].…”

Section: P Sativum Transcriptomicsmentioning

confidence: 99%

“…Genes associated with sugar and starch biosynthesis were signiicantly activated during seed maturation. Analysis of diferential expression of these genes revealed a negative correlation between soluble sugar and starch lux in vegetable and grain pea seeds [32]. Alves-Carvalho et al [39] developed the Pea RNA-Seq gene atlas containing expression proiles of thousands of genes in diferent pea tissues harvested at distinct developmental stages [48].…”

Section: Diferential Gene Expression (Dge)mentioning

confidence: 99%

Transcriptomic Studies in Non-Model Plants: Case of Pisum sativum L. and Medicago lupulina L.

Kulaeva¹,

Afonin²,

Zhernakov³

et al. 2017

Applications of RNA-Seq and Omics Strategies - From Microorganisms to Human Health

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Transcriptomics is a dynamically developing branch of biology highly important for geneticists and molecular ecologists alike. A large number of studies concerning diferential gene expression, mapping of genes and quantitative trait loci (QTL), analysis of genotyping variations and so on has been conducted recently on several non-model plants using next-generation sequencing techniques. One example of non-model legumes is garden pea (Pisum sativum L.), a valuable pulse crop capable of forming nitrogen-ixing nodules and arbuscular mycorrhiza. Adaptation of standardised RNA-seq approaches and data analysis developed for model plants to P. sativum should facilitate both studying of pea molecular genetics and breeding of new cultivars possessing agriculturally important traits. Another non-model legume is black medick Medicago lupulina L. (a close relative of model legume plant barrel medick, Medicago truncatula Gaertn.), for which unique genetic lines almost obligatory dependent on arbuscular mycorrhiza symbiosis formation have been obtained. Such lines show promise as the perfect model for studying the genetic bases of arbuscular mycorrhiza development. In this chapter, we give a brief description of the current developments in the ield of garden pea and black medick transcriptomics. Our aim is to provide a quick start guide to the non-expert researchers for next-generation sequencing (NGS)-based transcriptome analysis.

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Comparative Transcriptomic Analyses of Vegetable and Grain Pea (Pisum sativum L.) Seed Development

Cited by 31 publications

References 76 publications

Identification of Differentially Expressed Genes Involved in the Molecular Mechanism of Pericarp Elongation and Differences in Sucrose and Starch Accumulation between Vegetable and Grain Pea (Pisum sativum L.)

Identification of Differentially Expressed Genes Involved in the Molecular Mechanism of Pericarp Elongation and Differences in Sucrose and Starch Accumulation between Vegetable and Grain Pea (Pisum sativum L.)

Advances in vegetable breeding for nutraceuticals and quality traits

Transcriptomic Studies in Non-Model Plants: Case of Pisum sativum L. and Medicago lupulina L.

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