CRISPR/Cas9 mutations in the rice Waxy/GBSSI gene induce allele-specific and zygosity-dependent feedback effects on endosperm starch biosynthesis

Peña-Pérez, Lucía; Soto, Erika; Farré, Gemma; Juanos, Julia; Villorbina, Gemma; Bassié, Ludovic; Medina, Vicente; Serrato, Antonio Jesús; Sahrawy, Mariam; Rojas, J. A.; Romagosa, I.; Muñoz, Pilar; Zhu, Changfu; Christou, Paul

doi:10.1007/s00299-019-02388-z

Cited by 48 publications

(24 citation statements)

References 55 publications

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“…whether they have an organ-or tissue-specific role in (1,3;1,4)-β-glucan biosynthesis, are impacted by compensatory mechanisms (Pérez et al, 2019) or synthesise other polysaccharides such as glucoxylan (Little et al, 2019).…”

Section: Discussionmentioning

confidence: 99%

Targeted mutation of barley (1,3;1,4)-β-glucan synthases reveals complex relationships between the storage and cell wall polysaccharide content

Garcia-Gimenez

Barakate

Smith

et al. 2020

Preprint

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Section: Discussionmentioning

confidence: 99%

Targeted mutation of barley (1,3;1,4)-β-glucan synthases reveals complex relationships between the storage and cell wall polysaccharide content

Garcia-Gimenez

Barakate

Smith

et al. 2020

Preprint

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“…Other putative candidate genes associated with starch biosynthesis such as GBSS1 and APL2 showed differential expression in flower buds of high hybrid. Knockdown or mutation of GBSSI or APL2 effect reproductive growth as a result shrunken seeds were produced in rice [90]. Additionally, promising candidate signaling genes associated with JAZ10 and MPK4 protein showed differential expression in only 1DPA ovule of low hybrid.…”

Section: Role Of Qtls and Co-expression Network To Excavate Candidatementioning

confidence: 99%

Comparative transcriptome analysis between inbred and hybrids reveals molecular insights into yield heterosis of upland cotton

Shahzad

Zhang

Guo

et al. 2020

Preprint

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Background: Utilization of heterosis has greatly enhanced the productivity of many crops worldwide. Understanding the potential molecular mechanism about how hybridization in cotton produces superior yield is critical for efficient plant breeding. Results: With the whole-genome RNA sequencing, here, high, medium, and low hybrids varying in level of yield heterosis were screened based on different years and locations field experimentation. Phenotypically, high Department showed a mean of 14% more seed cotton yield than its better parent. A total of 63 samples comprised of different squaring stage tissues of three hybrids and four their inbred parents were used to perform transcriptomic analysis. A comparison of transcriptomic differences in each hybrid parent triad revealed a higher percentage of differentially expressed genes (DEGs) in each tissue. Expression level dominance analysis exposed the majority of hybrids DEGs followed parent like expressions. Functional annotations identified an array of DEGs involved in ATP and protein binding, membrane, cell wall, mitochondrion, and protein phosphorylation. Starch and sucrose metabolism and plant hormone signal transduction pathways were most enriched in each hybrid. Further, these two pathways had most mapped DEGs on known seed cotton yield QTLs. Integration of transcriptome, QTLs, and gene co-expression network analysis raveled genes GhBZR1, GhASK8, At3g43860, GhGBSS1, GhAPL2, GhMPK4, GhPHO1, GhJAZ10, and GhCRR21 displayed a complex regulatory network of many interconnected genes. qRT-PCR of these DEGs was performed to ensure the accuracy of RNA-Seq data. Conclusions: Through genome-wide comparative transcriptome analysis, the current study provides novel insights about phenomics and genomics of heterosis in upland cotton. Our results and data resources will be useful for dissecting the molecular mechanism of yield heterosis in cotton.

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“…Other putative candidate genes associated with starch biosynthesis such as GBSS1 and APL2 showed differential expression in ower buds of high hybrid. CRISPR/Cas9 mediated mutations of GBSSI effect reproductive growth as a result shrunken seeds were produced in rice [93]. Additionally, promising candidate signaling genes associated with JAZ10 and MPK4 protein showed differential expression in only 1 DPA ovule of low hybrid.…”

Section: Role Of Qtls and Co-expression Network To Excavate Candidatementioning

confidence: 99%

Comparative transcriptome analysis between inbred and hybrids reveals molecular insights into yield heterosis of upland cotton

Shahzad

Zhang

Guo

et al. 2020

Preprint

View full text Add to dashboard Cite

Background: Utilization of heterosis has greatly improved the productivity of many crops worldwide. Understanding the potential molecular mechanism about how hybridization produces superior yield in upland cotton is critical for efficient breeding programs. Results: In this study, high, medium, and low hybrids varying in the level of yield heterosis were screened based on field experimentation of different years and locations. Phenotypically, high hybrid produced a mean of 14% more seed cotton yield than its better parent. Whole-genome RNA sequencing of these hybrids and their four inbred parents was performed using different tissues of the squaring stage. Comparative transcriptomic differences in each hybrid parent triad revealed a higher percentage of differentially expressed genes (DEGs) in each tissue. Expression level dominance analysis identified majority of hybrids DEGs were biased towards parent like expressions. An array of DEGs involved in ATP and protein binding, membrane, cell wall, mitochondrion, and protein phosphorylation had more functional annotations in hybrids. Sugar metabolic and plant hormone signal transduction pathways were most enriched in each hybrid. Further, these two pathways had most mapped DEGs on known seed cotton yield QTLs. Integration of transcriptome, QTLs, and gene co-expression network analysis discovered genes Gh_A03G1024, Gh_D08G1440, Gh_A08G2210, Gh_A12G2183, Gh_D07G1312, Gh_D08G1467, Gh_A03G0889, Gh_A08G2199, and Gh_D05G0202 displayed a complex regulatory network of many interconnected genes. qRT-PCR of these DEGs was performed to ensure the accuracy of RNA-Seq data. Conclusions: Through genome-wide comparative transcriptome analysis, the current study identified nine key genes and pathways associated with biological process of yield heterosis in upland cotton. Our results and data resources provide novel insights and will be useful for dissecting the molecular mechanism of yield heterosis in cotton.

show abstract

CRISPR/Cas9 mutations in the rice Waxy/GBSSI gene induce allele-specific and zygosity-dependent feedback effects on endosperm starch biosynthesis

Cited by 48 publications

References 55 publications

Targeted mutation of barley (1,3;1,4)-β-glucan synthases reveals complex relationships between the storage and cell wall polysaccharide content

Targeted mutation of barley (1,3;1,4)-β-glucan synthases reveals complex relationships between the storage and cell wall polysaccharide content

Comparative transcriptome analysis between inbred and hybrids reveals molecular insights into yield heterosis of upland cotton

Comparative transcriptome analysis between inbred and hybrids reveals molecular insights into yield heterosis of upland cotton

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