Comprehensive transcriptome profiling to identify genes involved in pistil abortion of Japanese apricot

Iqbal, Shahid; Pan, Zhijuan; Hayat, Faisal; Bai, Yang; Coulibaly, Daouda; Ali, Sajid; Ni, Xiaopeng; Shi, Ting; Gao, Zhihong

doi:10.1007/s12298-021-01019-w

Cited by 10 publications

(3 citation statements)

References 86 publications

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“…After blooming, genes involved in the stimulus response and cell-to-cell communication are expressed in the flower, especially in the pistil and ovary, which might reflect the pollination and fertilization process, even though ‘Somei-Yoshino’ is self-incompatible. Similar transcriptome profiles were observed in other Prunus species ( Habu and Tao, 2014 ; Gómez et al, 2019 ; Iqbal et al, 2021 ). Compared with the molecular mechanism on flower opening process in this study ( Figure 3 ), similar processes have been activated and modulated even in dormancy period, with genes for sugar synthesis and mobilization, lipid peroxidation, coumarate metabolism, transmembrane transport, cell wall remodeling, and ABA synthesis and signaling ( Prudencio et al, 2021 ) as well as gametophyte development in Prunus species ( Julian et al, 2011 ; Rios et al, 2013 ).…”

Section: Discussionsupporting

confidence: 81%

Cherry Blossom Forecast Based on Transcriptome of Floral Organs Approaching Blooming in the Flowering Cherry (Cerasus × yedoensis) Cultivar ‘Somei-Yoshino’

et al. 2022

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To gain insights into the genetic mechanisms underlying blooming and petal movement in flowering cherry (Cerasus × yedoensis), we performed time-course RNA-seq analysis of the floral buds and open-flowers of the most popular flowering cherry cultivar, ‘Somei-Yoshino.’ Independent biological duplicate samples of floral buds and open-flowers were collected from ‘Somei-Yoshino’ trees grown at three different locations in Japan. RNA-seq reads obtained from floral bud and open-flower samples collected in the current study (in 2019) and in a previous study (in 2017) were aligned against the genome sequence of ‘Somei-Yoshino’ to quantify gene transcript levels. Clustering analysis of RNA-seq reads revealed dynamic changes in the transcriptome, with genes in seven modules predominantly expressed at specific time points, ranging from 5 weeks before flowering to 2 weeks after flowering. Based on the identified gene modules and Gene Ontology (GO) terms enriched at different floral stages, we speculate that the genetic mechanisms underlying petal movement and flower opening in cherry involve the processes of development, cell wall organization, reproduction, and metabolism, which are executed by genes encoding transcription factors, phytohormones, transporters, and polysaccharide metabolic enzymes. Furthermore, we established a statistical model for cherry bloom forecasting, based on gene expression levels as RNA markers at different time points before flowering.

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Section: Discussionsupporting

confidence: 81%

Cherry Blossom Forecast Based on Transcriptome of Floral Organs Approaching Blooming in the Flowering Cherry (Cerasus × yedoensis) Cultivar ‘Somei-Yoshino’

et al. 2022

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“…Auxin is the main signaling molecule involved in different processes of plant growth and development [ 31 , 32 , 33 ]. Aux/IAA are the major proteins of auxin-mediated development that bind to ARF proteins to suppress or express the target genes [ 34 , 35 ].…”

Section: Discussionmentioning

confidence: 99%

Bioinformatics Study of Aux/IAA Family Genes and Their Expression in Response to Different Hormones Treatments during Japanese Apricot Fruit Development and Ripening

Iqbal

Hayat

Mushtaq

et al. 2022

Plants

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Auxin/indole-3-acetic acid (Aux/IAA) is a transcriptional repressor in the auxin signaling pathway that plays a role in several plant growth and development as well as fruit and embryo development. However, it is unclear what role they play in Japanese apricot (Prunus mume) fruit development and maturity. To investigate the role of Aux/IAA genes in fruit texture, development, and maturity, we comprehensively identified and expressed 19 PmIAA genes, and demonstrated their conserved domains and homology across species. The majority of PmIAA genes are highly responsive and expressed in different hormone treatments. PmIAA2, PmIAA5, PmIAA7, PmIAA10, PmIAA13, PmIAA18, and PmIAA19 showed a substantial increase in expression, suggesting that these genes are involved in fruit growth and maturity. During fruit maturation, alteration in the expression of PmIAA genes in response to 1-Methylcyclopropene (1-MCP) treatment revealed an interaction between auxin and ethylene. The current study investigated the response of Aux/IAA development regulators to auxin during fruit ripening, with the goal of better understanding their potential application in functional genomics.

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“…Japanese apricot is an important stone fruit and an ornamental tree of this genus, that originates from China [39], which is sympathetic to typical GSI species [29]. P. mume blooms very early in the spring when pollination is severely restricted by several constraints (such as available insects, weather, and pollinizers).…”

Section: Introductionmentioning

confidence: 99%

A Key Study on Pollen-Specific SFB Genotype and Identification of Novel SFB Alleles from 48 Accessions in Japanese Apricot (Prunus mume Sieb. et Zucc.)

Coulibaly

et al. 2022

Forests

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Self-incompatibility (SI) is a common strategy to avoid inbreeding and, consequently, keep genetic diversity within a species. In its mechanism, pollen rejection happens in the style when the single multiallelic locus (SFB in prunus species) of the haploid pollen matches one of the S-alleles existing in the diploid pistil. The SFB gene for the pollen S gene has been identified in many Prunus species. However, Japanese apricot is a species with a typical gametophytic self-incompatibility (GSI), and its SFB alleles available are limited, although they are required for studying GSI. Therefore, we used an AS-PCR amplification method, sequencing, and the pair primers SFB-C1F and Pm-Vb designed based on the conserved region of the Prunus SFB gene to identify SFB genotypes of 48 Japanese apricot (P. mume) accessions. Eleven novel SFB alleles were isolated from these accessions and shared typical structural features with SFB alleles from other Prunus species. These novel SFB alleles were uniquely expressed in pollen. Hence, we concluded that these 11 PmSFB were pollen S determinants of P. mume. This current study offers the novel SFB genes of the P. mume S locus, which could be a useful potential resource for studies on pollen SI mechanisms.

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Comprehensive transcriptome profiling to identify genes involved in pistil abortion of Japanese apricot

Cited by 10 publications

References 86 publications

Cherry Blossom Forecast Based on Transcriptome of Floral Organs Approaching Blooming in the Flowering Cherry (Cerasus × yedoensis) Cultivar ‘Somei-Yoshino’

Cherry Blossom Forecast Based on Transcriptome of Floral Organs Approaching Blooming in the Flowering Cherry (Cerasus × yedoensis) Cultivar ‘Somei-Yoshino’

Bioinformatics Study of Aux/IAA Family Genes and Their Expression in Response to Different Hormones Treatments during Japanese Apricot Fruit Development and Ripening

A Key Study on Pollen-Specific SFB Genotype and Identification of Novel SFB Alleles from 48 Accessions in Japanese Apricot (Prunus mume Sieb. et Zucc.)

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