Genome-Wide Identification of the LAC Gene Family and Its Expression Analysis Under Stress in Brassica napus

Ping, Xiaoke; Wang, Tengyue; Lin, Ning; Di, Feifei; Li, Yangyang; Jian, Hongju; Wang, Hao; Lu, Kun; Li, Jiana; Xu, Xinhua; Liu, Liezhao

doi:10.3390/molecules24101985

Cited by 21 publications

(13 citation statements)

References 54 publications

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“…Immune response [98] miR397a, miR397b and miR6034 Various stresses [99] multiple miRNAs Drought and salt stress [100] Broccoli (Brassica oleracea) multiple miRNAs Heat stress [101] Cabbage (Brassica L.) multiple miRNAs Heat and drought stress [102] multiple miRNAs Turnip Mosaic Virus infection [103] Cassava (Manihot esculenta) miR160, miR393…”

Section: Micrornas Stress Responses Referencementioning

confidence: 99%

MicroRNAs: Potential Targets for Developing Stress-Tolerant Crops

Chaudhary

Grover

Sharma

2021

Life

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Crop yield is challenged every year worldwide by changing climatic conditions. The forecasted climatic scenario urgently demands stress-tolerant crop varieties to feed the ever-increasing global population. Molecular breeding and genetic engineering approaches have been frequently exploited for developing crops with desired agronomic traits. Recently, microRNAs (miRNAs) have emerged as powerful molecules, which potentially serve as expression markers during stress conditions. The miRNAs are small non-coding endogenous RNAs, usually 20–24 nucleotides long, which mediate post-transcriptional gene silencing and fine-tune the regulation of many abiotic- and biotic-stress responsive genes in plants. The miRNAs usually function by specifically pairing with the target mRNAs, inducing their cleavage or repressing their translation. This review focuses on the exploration of the functional role of miRNAs in regulating plant responses to abiotic and biotic stresses. Moreover, a methodology is also discussed to mine stress-responsive miRNAs from the enormous amount of transcriptome data available in the public domain generated using next-generation sequencing (NGS). Considering the functional role of miRNAs in mediating stress responses, these molecules may be explored as novel targets for engineering stress-tolerant crop varieties.

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Section: Micrornas Stress Responses Referencementioning

confidence: 99%

MicroRNAs: Potential Targets for Developing Stress-Tolerant Crops

Chaudhary

Grover

Sharma

2021

Life

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“…In higher plants, the LAC genes within different species vary, and the LAC gene family of each plant is usually divided into six subfamilies based on protein sequence characteristics, such as those of soybean [ 36 ], S. viridis [ 37 ], and sweet cherry [ 40 ]. However, in C. sinensis and Brassica napus , the LAC gene family is divided into seven and five subfamilies, respectively [ 35 , 49 ]. Differences in the degree of expansion of LAC genes have been found within different species, such as in subfamilies III and II in B. napus [ 49 ], subfamily V in S. viridis [ 37 ], soybean [ 36 ] and pear [ 31 ], and subfamily I in C. sinensis [ 35 ].…”

Section: Discussionmentioning

confidence: 99%

“…However, in C. sinensis and Brassica napus , the LAC gene family is divided into seven and five subfamilies, respectively [ 35 , 49 ]. Differences in the degree of expansion of LAC genes have been found within different species, such as in subfamilies III and II in B. napus [ 49 ], subfamily V in S. viridis [ 37 ], soybean [ 36 ] and pear [ 31 ], and subfamily I in C. sinensis [ 35 ]. In sweet cherry [ 40 ], which is also a type of drupe, the LAC gene family is significantly expanded in subfamilies II and IV, similar to the result obtained for walnut in the present study.…”

Section: Discussionmentioning

confidence: 99%

“…Xiao et al . found that most of the genes that are highly expressed in lignified tissues, such as roots and stems of B. napus, belong to LAC subfamilies I, II and III [ 49 ]. In the C4 model grass S. viridis , SvLAC52, SvLAC15 and SvLAC9 ( AtLAC2 or LAC17 homologs) in subfamily I and SvLAC50 (homolog of AtLAC16 ) in subfamily II are also highly expressed in the transitional and maturation zones, where lignin biosynthesis-related genes are active [ 37 ].…”

Section: Discussionmentioning

confidence: 99%

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The role of JrLACs in the lignification of walnut endocarp

Wang

Liu

et al. 2021

BMC Plant Biol

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Background The walnut shell, which is composed of a large number of sclereids originating from the lignified parenchyma of the endocarp, plays an important role in fruit development and during harvesting and storage. The physical and chemical properties of walnut shells are closely related to the lignin content. Laccase is the key enzyme responsible for lignin biosynthesis by the polymerization of monolignols and plays crucial roles in secondary cell wall formation in plants. In this study, we screened and identified laccase family genes from the walnut genome and investigated the expression of laccase during endocarp lignification in walnut. Results A total of 37 laccase genes were screened from the walnut genome and distributed on nine chromosomes and classified into 6 subfamilies, among which subfamily IV showed distinct expansion. We observed that endocarp lignification started 44 days after flowering (DAF), and at later periods, the lignin content increased rapidly, with growth peaks at 44–50 DAF and 100–115 DAF. The lignification of the endocarp proceeded from the outside to the inside, as demonstrated by section staining in combination with endocarp staining. Furthermore, the changes in the expression of laccase family genes in the endocarp at different developmental stages were studied, and JrLACs showed different expression trends. The expression of nine genes showed significant increase after 44 DAF, and among these, JrLAC12–1, JrLAC12–2 and JrLAC16 showed a significant change in expression at the lignification stage. A study of the expression of JrLACs in different tissues and at various endocarp developmental stages revealed, that most JrLACs were expressed at low levels in mature tissues and at high levels in young tissues, in particular, JrLAC12–1 showed high expression in the young stems. A significant positive correlation was found between the expression of JrLAC12–1 and the variation in the lignin content in the endocarp. Conclusion Laccase genes play an important role in the lignification of the walnut endocarp, and JrLACs play different roles during fruit development. This study shows that JrLAC12–1 may play a key role in the lignification of endocarp.

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“…This special issue contains six related papers to the subtopic. Ping et al [21] utilized bioinformatics tools and software such as the Basic Local Alignment Search Tool (BLAST), MEGA7.0, GSDS2.0 etc. to identify laccase gene families from three different Brassics.…”

Section: Bioinformaticsmentioning

confidence: 99%

Molecular Computing and Bioinformatics

Liang

Zhu

et al. 2019

Molecules

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Molecular computing and bioinformatics are two important interdisciplinary sciences that study molecules and computers. Molecular computing is a branch of computing that uses DNA, biochemistry, and molecular biology hardware, instead of traditional silicon-based computer technologies. Research and development in this area concerns theory, experiments, and applications of molecular computing. The core advantage of molecular computing is its potential to pack vastly more circuitry onto a microchip than silicon will ever be capable of—and to do it cheaply. Molecules are only a few nanometers in size, making it possible to manufacture chips that contain billions—even trillions—of switches and components. To develop molecular computers, computer scientists must draw on expertise in subjects not usually associated with their field, including organic chemistry, molecular biology, bioengineering, and smart materials. Bioinformatics works on the contrary; bioinformatics researchers develop novel algorithms or software tools for computing or predicting the molecular structure or function. Molecular computing and bioinformatics pay attention to the same object, and have close relationships, but work toward different orientations.

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Genome-Wide Identification of the LAC Gene Family and Its Expression Analysis Under Stress in Brassica napus

Cited by 21 publications

References 54 publications

MicroRNAs: Potential Targets for Developing Stress-Tolerant Crops

MicroRNAs: Potential Targets for Developing Stress-Tolerant Crops

The role of JrLACs in the lignification of walnut endocarp

Molecular Computing and Bioinformatics

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