Comprehensive analysis of polygalacturonase genes offers new insights into their origin and functional evolution in land plants

Mahmood, Umer; Fan, Yonghai; Wei, Siyu; Niu, Yue; Li, Yanhua; Huang, Hualei; Chen, Yuling; Tang, Zhongjie; Liu, Liezhao; Qu, Cunmin; Zhang, Kai; Li, Jiana; Lü, Kun

doi:10.1016/j.ygeno.2020.11.006

Cited by 8 publications

(3 citation statements)

References 67 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The modification and disassembly of pectin are executed by various hydrolytic enzymes ( Mahmood et al, 2021 ). In the genome of D. sinensis , the number of GH28 (polygalacturonase, PG) genes encoding pectin decomposing enzyme was as high as 11, and the number of CE8 (pectin methylesterase, PME) encoding gene was only 2.…”

Section: Discussionmentioning

confidence: 99%

Whole genome sequencing and annotation of Daedaleopsis sinensis, a wood-decaying fungus significantly degrading lignocellulose

Ma,

Wang,

Jin

et al. 2024

Front. Bioeng. Biotechnol.

View full text Add to dashboard Cite

Daedaleopsis sinensis is a fungus that grows on wood and secretes a series of enzymes to degrade cellulose, hemicellulose, and lignin and cause wood rot decay. Wood-decaying fungi have ecological, economic, edible, and medicinal functions. Furthermore, the use of microorganisms to biodegrade lignocellulose has high application value. Genome sequencing has allowed microorganisms to be analyzed from the aspects of genome characteristics, genome function annotation, metabolic pathways, and comparative genomics. Subsequently, the relevant information regarding lignocellulosic degradation has been mined by bioinformatics. Here, we sequenced and analyzed the genome of D. sinensis for the first time. A 51.67-Mb genome sequence was assembled to 24 contigs, which led to the prediction of 12,153 protein-coding genes. Kyoto Encyclopedia of Genes and Genomes database analysis of the D. sinensis data revealed that 3,831 genes are involved in almost 120 metabolic pathways. According to the Carbohydrate-Active Enzyme database, 481 enzymes are found in D. sinensis, of which glycoside hydrolases are the most abundant. The genome sequence of D. sinensis provides insights into its lignocellulosic degradation and subsequent applications.

show abstract

Section: Discussionmentioning

confidence: 99%

Whole genome sequencing and annotation of Daedaleopsis sinensis, a wood-decaying fungus significantly degrading lignocellulose

Ma,

Wang,

Jin

et al. 2024

Front. Bioeng. Biotechnol.

View full text Add to dashboard Cite

show abstract

“…The activity of glucose hydrolase in the dehiscence zone of the easy-explosive pod germplasm of Brassica is increased and the cell wall is degraded. For the conversion and distribution of β-glucase, this enzyme may be involved in the entire process of layer separation [51]. The endogenous polygalacturonic acid is involved in the degradation of the intercellular layer and is related to the cell separation during the pod shedding process.…”

Section: The Impact Of Key Enzymes On Seed Shatteringmentioning

confidence: 99%

Formation Mechanism and Occurrence Law of Pod Shattering in Soybean: A Review

Liu¹,

Zhang²,

Jiang³

et al. 2022

Phyton

View full text Add to dashboard Cite

Seed shattering refers to the phenomenon in which the pods split along the abdominal and back sutures before the crop is received, so that the seeds are spread. Seed shattering is vital to the reproduction of their offspring in wild plants, but it is also the main cause of crop yield loss reason. Pod-explosion resistance is a complex process of physical and physiological and biochemical reactions. Soybean seed shattering phenomenon is widespread, which severely restricts the development of soybean industry. Seed shattering (pod cracking or fruit dropping) is essential for the reproduction of its offspring in wild plants, but it is also the main cause of crop yield loss. This article analyzes the morphology and structure of pods related to seed shattering from the morphology of pods. On the basis of the regularity of the occurrence of seed shattering and the summary of phenotypic index identification methods, physiologically introduced the regulation mechanism of key enzymes and endogenous hormones on seed shattering. The localization, labeling and cloning of seed shattering genes are introduced in molecular biology. The study focused on reviewing the latest advances in the research on soybean seed shattering characteristics, and discussed with the research results of related crops. Finally, the research and application of soybean seed shattering resistance were prospected for several aspects.

show abstract

“…Several enzymes are also important to dissolve the SL and facilitate the whole mechanism together with other factors. The members of the PG family of pectin-degrading enzymes present downstream of the ALC and facilitate the formation of SL at maturity [ 8 , 18 , 19 ]. Compared with wild-type, Arabidopsis ( ARABIDOPSIS DEHISCENCE ZONE POLYGALACTURONASE ) adpg1 mutants showed pod shatter resistance unless external mechanical pressure was applied to the siliques [ 18 , 20 , 21 ].…”

Section: Introductionmentioning

confidence: 99%

Comparative transcriptome and co-expression network analysis revealed the genes associated with senescence and polygalacturonase activity involved in pod shattering of rapeseed

Mahmood

Qian

et al. 2023

Biotechnol Biofuels

Self Cite

View full text Add to dashboard Cite

Background The pod shattering (PS) trait negatively affects the crop yield in rapeseed especially under dry conditions. To better understand the trait and cultivate higher resistance varieties, it’s necessary to identify key genes and unravel the PS mechanism thoroughly. Results In this study, we conducted a comparative transcriptome analysis between two materials significantly different in silique shatter resistance lignin deposition and polygalacturonase (PG) activity. Here, we identified 10,973 differentially expressed genes at six pod developmental stages. We found that the late pod development stages might be crucial in preparing the pods for upcoming shattering events. GO enrichment results from K-means clustering and weighed gene correlation network analysis (WGCNA) both revealed senescence-associated genes play an important role in PS. Two hub genes Bna.A05ABI5 and Bna.C03ERF/AP2-3 were selected from the MEyellow module, which possibly regulate the PS through senescence-related mechanisms. Further investigation found that senescence-associated transcription factor Bna.A05ABI5 upregulated the expression of SAG2 and ERF/AP2 to control the shattering process. In addition, the upregulation of Bna.C03ERF/AP2-3 is possibly involved in the transcription of downstream SHP1/2 and LEA proteins to trigger the shattering mechanism. We also analyzed the PS marker genes and found Bna.C07SHP1/2 and Bna.PG1/2 were significantly upregulated in susceptible accession. Furthermore, the role of auxin transport by Bna.WAG2 was also observed, which could reduce the PG activity to enhance the PS resistance through the cell wall loosening process. Conclusion Based on comparative transcriptome evaluation, this study delivers insights into the regulatory mechanism primarily underlying the variation of PS in rapeseed. Taken together, these results provide a better understanding to increase the yield of rapeseed by reducing the PS through better engineered crops.

show abstract

Comprehensive analysis of polygalacturonase genes offers new insights into their origin and functional evolution in land plants

Cited by 8 publications

References 67 publications

Whole genome sequencing and annotation of Daedaleopsis sinensis, a wood-decaying fungus significantly degrading lignocellulose

Whole genome sequencing and annotation of Daedaleopsis sinensis, a wood-decaying fungus significantly degrading lignocellulose

Formation Mechanism and Occurrence Law of Pod Shattering in Soybean: A Review

Comparative transcriptome and co-expression network analysis revealed the genes associated with senescence and polygalacturonase activity involved in pod shattering of rapeseed

Contact Info

Product

Resources

About