Expression Analysis and Regulation Network Identification of the CONSTANS-Like Gene Family in Moso Bamboo (<i>Phyllostachys edulis</i>) Under Photoperiod Treatments

Liu, Jun; Cheng, Zhanchao; Li, Xiangyu; Xie, Lin; Bai, Yucong; Peng, Lixin; Li, Juan; Gao, Jian

doi:10.1089/dna.2018.4611

Cited by 10 publications

(6 citation statements)

References 74 publications

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“…In agriculture, the owering time of cultivated plants can be adjusted to meet consumer demand by changing the length of exposure to light. With rapid advances in the elds of molecular genetics and molecular biology, many genes related to photoperiod pathway have been discovered and cloned [5][6]. Studies have shown that CONSTANT-like (COL) is an important regulator of the plant response to photoperiods and is a core element in the regulation of plant owering [7][8][9].…”

Section: Introductionmentioning

confidence: 99%

“…According to the number of B-box and CCT domains, COL family genes can be divided into ve groups [11]. In previous reports, COL gene family have been comprehensively studied in many plants, including Arabidopsis, rice, maize, Populus, radish, moso bamboo and Lilium × formolongi [5][6][10][11][12][13][14]. The number of COL genes varies among different species.…”

Section: Introductionmentioning

confidence: 99%

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Genome-wide Identification, Expression, and Sequence Analysis of CONSTANT-like Gene Family in Cannabis Reveals Role in Plant Flowering Time Regulation

Pan

Yin

et al. 2020

Preprint

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Background: Cannabis, an important industrial crop, has a high sensitivity to photoperiods. The flowering time of cannabis is one of its important agronomic traits, and has an important effect on its yield and quality. The CONSTANS-like (COL) gene plays a key role in the regulation of flowering in this plant. However, the specific biological and functional roles of the COL gene family in the cannabis is still unknown. Results: In this study, 13 CsCOL genes were identified in the cannabis genome. Phylogenetic analysis implied that the CsCOL proteins were divided into three subgroups, and each subgroups included conserved intron/exon structures and motifs. Chromosome distribution analysis showed that 13 CsCOL genes were unevenly distributed on 7 chromosomes, with chromosome 10 having the most CsCOL members. Colinearity analysis showed that two syntenic gene pairs of CsCOL4 and CsCOL11 were found in both rice and Gossypium raimondii. Among 13 CsCOLs, CsCOL6 and CsCOL12 were a pair of tandem duplicated genes, whereas CsCOL8 and CsCOL11 may have resulted from segmental duplication. Furthermore, tissue-specific expression showed that ten CsCOL genes were preferentially expressed in the leaves, one CsCOL in the stem, and two CsCOL in the female flower. Most CsCOL exhibited a diurnal oscillation pattern under different light treatment. Additionally, sequence analysis showed that CsCOL3 and CsCOL7 exhibited amino acid difference among the early-flowering cultivars and late flowering cultivars. Conclusion: This study provided insight into the potential functions studies of CsCOL genes, and highlight its roles in the regulation of flowering time in cannabis. Our results laid a foundation for the further elucidation of the functions of COLs in cannabis

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genome-wide Identification, Expression, and Sequence Analysis of CONSTANT-like Gene Family in Cannabis Reveals Role in Plant Flowering Time Regulation

Pan

Yin

et al. 2020

Preprint

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show abstract

“…Furthermore, abiotic stresses create a serious impact on bamboo growth and development [213]. Access to the moso bamboo genome [210,211] provides a chance to many researchers for genome-wide classifications of TFs such as aquaporin, AAAP, UBP, IQD, HD-Zip, Hexokinase, Aux/IAA and ARF, NAC, PeUGE, HSF, and CONSTANS-like in moso bamboo [188,[214][215][216][217][218][219][220][221][222][223]. Genome-wide classifications of TFs' families in moso bamboo have been carried out and have demonstrated a limited molecular characterization in model plants by exogenous gene transfer in rice and Arabidopsis and the expression profile against stresses [224][225][226].…”

Section: Understanding the Bamboos' Tolerance Using Ngs And Metabolomementioning

confidence: 99%

Entailing the Next-Generation Sequencing and Metabolome for Sustainable Agriculture by Improving Plant Tolerance

Hou

Hussain

Imran

et al. 2022

IJMS

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Crop production is a serious challenge to provide food for the 10 billion individuals forecasted to live across the globe in 2050. The scientists’ emphasize establishing an equilibrium among diversity and quality of crops by enhancing yield to fulfill the increasing demand for food supply sustainably. The exploitation of genetic resources using genomics and metabolomics strategies can help generate resilient plants against stressors in the future. The innovation of the next-generation sequencing (NGS) strategies laid the foundation to unveil various plants’ genetic potential and help us to understand the domestication process to unmask the genetic potential among wild-type plants to utilize for crop improvement. Nowadays, NGS is generating massive genomic resources using wild-type and domesticated plants grown under normal and harsh environments to explore the stress regulatory factors and determine the key metabolites. Improved food nutritional value is also the key to eradicating malnutrition problems around the globe, which could be attained by employing the knowledge gained through NGS and metabolomics to achieve suitability in crop yield. Advanced technologies can further enhance our understanding in defining the strategy to obtain a specific phenotype of a crop. Integration among bioinformatic tools and molecular techniques, such as marker-assisted, QTLs mapping, creation of reference genome, de novo genome assembly, pan- and/or super-pan-genomes, etc., will boost breeding programs. The current article provides sequential progress in NGS technologies, a broad application of NGS, enhancement of genetic manipulation resources, and understanding the crop response to stress by producing plant metabolites. The NGS and metabolomics utilization in generating stress-tolerant plants/crops without deteriorating a natural ecosystem is considered a sustainable way to improve agriculture production. This highlighted knowledge also provides useful research that explores the suitable resources for agriculture sustainability.

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“…In agriculture, the flowering time of cultivated plants can be adjusted to meet consumer demand by changing the length of exposure to light. With rapid advances in the fields of molecular genetics and molecular biology, many genes related to the photoperiod pathway have been discovered and cloned [5,6]. Studies have shown that the CONSTANS-like (COL) genes are important regulators of the plant response to photoperiods and is a core element in the regulation of plant flowering [7][8][9].…”

Section: Introductionmentioning

confidence: 99%

“…Depending on the number of Bbox and CCT domains, COL family genes can be divided into five groups [11]. In previous reports, the COL gene family has been comprehensively studied in many plants, including Arabidopsis, rice (Oryza sativa L.), maize (Zea mays L.), Populus, radish (Raphanus sativus L.), moso bamboo (Phyllostachys heterocycla), and Lilium × formolongi [5,6,[10][11][12][13][14]. The number of COL genes varies among different species.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification, expression, and sequence analysis of CONSTANS-like gene family in cannabis reveals a potential role in plant flowering time regulation

Pan

Yin

et al. 2021

BMC Plant Biol

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Background Cannabis, an important industrial crop, has a high sensitivity to photoperiods. The flowering time of cannabis is one of its important agronomic traits, and has a significant effect on its yield and quality. The CONSTANS-like (COL) gene plays a key role in the regulation of flowering in this plant. However, the specific roles of the COL gene family in cannabis are still unknown. Results In this study, 13 CsCOL genes were identified in the cannabis genome. Phylogenetic analysis implied that the CsCOL proteins were divided into three subgroups, and each subgroup included conserved intron/exon structures and motifs. Chromosome distribution analysis showed that 13 CsCOL genes were unevenly distributed on 7 chromosomes, with chromosome 10 having the most CsCOL members. Collinearity analysis showed that two syntenic gene pairs of CsCOL4 and CsCOL11 were found in both rice and Gossypium raimondii. Of the 13 CsCOL genes, CsCOL6 and CsCOL12 were a pair of tandem duplicated genes, whereas CsCOL8 and CsCOL11 may have resulted from segmental duplication. Furthermore, tissue-specific expression showed that 10 CsCOL genes were preferentially expressed in the leaves, 1 CsCOL in the stem, and 2 CsCOL in the female flower. Most CsCOL exhibited a diurnal oscillation pattern under different light treatment. Additionally, sequence analysis showed that CsCOL3 and CsCOL7 exhibited amino acid differences among the early-flowering and late flowering cultivars. Conclusion This study provided insight into the potential functions of CsCOL genes, and highlighted their roles in the regulation of flowering time in cannabis. Our results laid a foundation for the further elucidation of the functions of COL genes in cannabis.

show abstract

Expression Analysis and Regulation Network Identification of the CONSTANS-Like Gene Family in Moso Bamboo (Phyllostachys edulis) Under Photoperiod Treatments

Cited by 10 publications

References 74 publications

Genome-wide Identification, Expression, and Sequence Analysis of CONSTANT-like Gene Family in Cannabis Reveals Role in Plant Flowering Time Regulation

Genome-wide Identification, Expression, and Sequence Analysis of CONSTANT-like Gene Family in Cannabis Reveals Role in Plant Flowering Time Regulation

Entailing the Next-Generation Sequencing and Metabolome for Sustainable Agriculture by Improving Plant Tolerance

Genome-wide identification, expression, and sequence analysis of CONSTANS-like gene family in cannabis reveals a potential role in plant flowering time regulation

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