<i>Ef-cd</i>
            locus shortens rice maturity duration without yield penalty

Fang, Jun; Zhang, Fantao; Wang, Hongru; Wang, Wei; Zhao, Fei; Li, Zijuan; Sun, Changhui; Chen, Fa‐Ming; Xu, Fan; Chang, Shuoqi; Wu, Liang; Bu, Qingyun; Wang, Pingrong; Xie, Jiankun; Fan, Chunyu; Huang, Xuehui; Zhang, Yijing; Zhu, Xin-Guang; Han, Bo; Deng, Xiping; Chu, Chengcai

doi:10.1073/pnas.1815030116

Cited by 95 publications

(63 citation statements)

References 45 publications

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“…Other flowering time-related lncRNAs, including FLOWERING LONG INTERGENIC NON CODING RNA ( FLINC ), CDF5 LONG NONCODING RNA ( FLORE ), LDMAR , PHOTOPERIOD-SENSITIVE GENIC MALE STERILITY 1 ( PMS1T ) and Ef-cd , have been recently discovered in Arabidopsis or rice (Ding et al 2012a , b ; Fan et al 2016 ; Henriques et al 2017 ; Severing et al 2018 ; Fang et al 2019 ). FLINC regulates ambient temperature-mediated flowering.…”

Section: Functions and Molecular Mechanisms Of Lncrnas In Plantsmentioning

confidence: 99%

“…After floral transition, the inflorescence meristem starts to produce floral meristems, which in turn give rise to different types of floral organs. Nowadays, a number of lncRNAs such as LINC-AP2 (Gao et al 2016 ), LONG-DAY SPECIFIC MALE-FERTILITY-ASSOCIATED RNA (LDMAR) (Ding et al 2012a , b ), PHOTOPERIOD-SENSITIVE GENIC MALE STERILITY T ( PMS1T ; Fan et al 2016 ), and EARLY FLOWERING-COMPLETELY DOMINANT ( Ef-cd ; Fang et al 2019 ) have been found to regulate diverse aspects of flower and reproductive development (see Supplemental table S1 for a more comprehensive list of examples). LINC-AP2 is an intergenic lincRNA close to the flower developmental regulatory TF gene APETALA2 ( AP2) .…”

Section: Functions and Molecular Mechanisms Of Lncrnas In Plantsmentioning

confidence: 99%

“…2 f). Ef-cd is an antisense RNA in the OsSOC1 locus and positively regulates OsSOC1 activity by deposition of H3K36me3, thereby reducing the time-span that is needed to reach plant maturity without yield penalty (Fang et al 2019 ). Together, these findings highlight important functions for lncRNAs in reproductive growth via different molecular mechanisms.…”

Section: Functions and Molecular Mechanisms Of Lncrnas In Plantsmentioning

confidence: 99%

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Long non-coding RNAs in plants: emerging modulators of gene activity in development and stress responses

Chen

Zhu

Kaufmann

2020

Planta

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Main conclusion Long non-coding RNAs modulate gene activity in plant development and stress responses by various molecular mechanisms. Abstract Long non-coding RNAs (lncRNAs) are transcripts larger than 200 nucleotides without protein coding potential. Computational approaches have identified numerous lncRNAs in different plant species. Research in the past decade has unveiled that plant lncRNAs participate in a wide range of biological processes, including regulation of flowering time and morphogenesis of reproductive organs, as well as abiotic and biotic stress responses. LncRNAs execute their functions by interacting with DNA, RNA and protein molecules, and by modulating the expression level of their targets through epigenetic, transcriptional, post-transcriptional or translational regulation. In this review, we summarize characteristics of plant lncRNAs, discuss recent progress on understanding of lncRNA functions, and propose an experimental framework for functional characterization.

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Section: Functions and Molecular Mechanisms Of Lncrnas In Plantsmentioning

confidence: 99%

Section: Functions and Molecular Mechanisms Of Lncrnas In Plantsmentioning

confidence: 99%

Section: Functions and Molecular Mechanisms Of Lncrnas In Plantsmentioning

confidence: 99%

See 1 more Smart Citation

Long non-coding RNAs in plants: emerging modulators of gene activity in development and stress responses

Chen

Zhu

Kaufmann

2020

Planta

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“…6442S-7 showed a completely dominant earlymaturing phenotype, and a dominant earliness gene, designated Early flowering-completely dominant (Ef-cd), was roughly mapped to the short arm of rice chromosome 3 (Deng et al, 2001). After 18 years of effort, Ef-cd was finally cloned by map-based cloning (Fang et al, 2019). Interestingly, Ef-cd encodes a long noncoding RNA (lncRNA) that is transcribed from the antisense strand of OsSOC1, which encodes a flowering activator in rice.…”

Section: Cloning Of Ef-cd and Its Action Mechanismmentioning

confidence: 99%

Rice Breeding: A Long Noncoding Locus with Great Potential

Qian

2019

Molecular Plant

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Rice is one of the most widely consumed cereal crops and staple food for more than half of the world's population, especially in Asian countries (Li and Cui, 2014). The growth period of rice is an important agronomic trait, which determines the planting regions or adaptabilities of rice varieties. In breeding practice, there is often a contradiction between high yield and early maturity (Wang et al., 2018a), meaning that a variety with higher yield usually has a longer growth period. Thus, breeding varieties with early maturity and high yield has been one of the main directions of genetic breeding programs.

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“…Recent studies have demonstrated that lncRNAs participate in diversified biological functions in different organisms [23,24]. Nevertheless, only a few lncRNAs have been well characterized in plants, including COOLAIR and COLDAIR in the regulation of flowering in Arabidopsis [25,26], INDUCED BY PHOSPHATE STARVATION1, which is involved in phosphate uptake [27,28]; Enod40, which is involved in nodulation [29,30]; LDMAR, which is required for pollen development in rice [31]; LAIR, which increases rice grain yield [32]; and Ef-cd, which shortens rice maturity duration without a yield penalty [33]. Remarkably, accumulated evidence has demonstrated the involvement of lncRNAs in biotic and abiotic stress responses in plants [34].…”

Section: Introductionmentioning

confidence: 99%

A Comprehensive Transcriptomics Analysis Reveals Long Non-Coding RNA to Be Involved in the Key Metabolic Pathway in Response to Waterlogging Stress in Maize

Tan

Tian

et al. 2020

Genes

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Waterlogging stress (WS) in a dynamic environment seriously limits plant growth, development, and yield. The regulatory mechanism underlying WS conditions at an early stage in maize seedlings is largely unknown. In the present study, the primary root tips of B73 seedlings were sampled before (0 h) and after (2 h, 4 h, 6 h, 8 h, 10 h, and 12 h) WS and then subjected to transcriptome sequencing, resulting in the identification of differentially expressed protein-coding genes (DEpcGs) and long non-coding RNAs (DElncRs) in response to WS. These DEpcGs were classified into nine clusters, which were significantly enriched in several metabolic pathways, such as glycolysis and methionine metabolism. Several transcription factor families, including AP2-EREBP, bZIP, NAC, bHLH, and MYB, were also significantly enriched. In total, 6099 lncRNAs were identified, of which 3190 were DElncRs. A co-expression analysis revealed lncRNAs to be involved in 11 transcription modules, 10 of which were significantly associated with WS. The DEpcGs in the four modules were enriched in the hypoxia response pathways, including phenylpropanoid biosynthesis, MAPK signaling, and carotenoid biosynthesis, in which 137 DElncRs were also co-expressed. Most of the co-expressed DElncRs were co-localized with previously identified quantitative trait loci associated with waterlogging tolerance. A quantitative reverse transcription-polymerase chain reaction analysis of DEpcG and DElncR expression among the 32 maize genotypes after 4 h of WS verified significant expression correlations between them as well as significant correlation with the phenotype of waterlogging tolerance. Moreover, the high proportion of hypoxia response elements in the promoter region increased the reliability of the DElncRs identified in this study. These results provide a comprehensive transcriptome in response to WS at an early stage of maize seedlings and expand our understanding of the regulatory network involved in hypoxia in plants.

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Ef-cd locus shortens rice maturity duration without yield penalty

Cited by 95 publications

References 45 publications

Long non-coding RNAs in plants: emerging modulators of gene activity in development and stress responses

Long non-coding RNAs in plants: emerging modulators of gene activity in development and stress responses

Rice Breeding: A Long Noncoding Locus with Great Potential

A Comprehensive Transcriptomics Analysis Reveals Long Non-Coding RNA to Be Involved in the Key Metabolic Pathway in Response to Waterlogging Stress in Maize

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