Dataset Information

Genetic, transcriptional, and regulatory landscape of monolignol biosynthesis pathway in Miscanthus?×?giganteus.

ABSTRACT: Background:Miscanthus?×?giganteus is widely recognized as a promising lignocellulosic biomass crop due to its advantages of high biomass production, low environmental impacts, and the potential to be cultivated on marginal land. However, the high costs of bioethanol production still limit the current commercialization of lignocellulosic bioethanol. The lignin in the cell wall and its by-products released in the pretreatment step is the main component inhibiting the enzymatic reactions in the saccharification and fermentation processes. Hence, genetic modification of the genes involved in lignin biosynthesis could be a feasible strategy to overcome this barrier by manipulating the lignin content and composition of M.?×?giganteus. For this purpose, the essential knowledge of these genes and understanding the underlying regulatory mechanisms in M.?×?giganteus is required. Results:In this study, MgPAL1, MgPAL5, Mg4CL1, Mg4CL3, MgHCT1, MgHCT2, MgC3'H1, MgCCoAOMT1, MgCCoAOMT3, MgCCR1, MgCCR2, MgF5H, MgCOMT, and MgCAD were identified as the major monolignol biosynthetic genes in M.?×?giganteus based on genetic and transcriptional evidence. Among them, 12 genes were cloned and sequenced. By combining transcription factor binding site prediction and expression correlation analysis, MYB46, MYB61, MYB63, WRKY24, WRKY35, WRKY12, ERF021, ERF058, and ERF017 were inferred to regulate the expression of these genes directly. On the basis of these results, an integrated model was summarized to depict the monolignol biosynthesis pathway and the underlying regulatory mechanism in M.?×?giganteus. Conclusions:This study provides a list of potential gene targets for genetic improvement of lignocellulosic biomass quality of M.?×?giganteus, and reveals the genetic, transcriptional, and regulatory landscape of the monolignol biosynthesis pathway in M.?×?giganteus.

SUBMITTER: Zeng X

PROVIDER: S-EPMC7590476 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature

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Genetic, transcriptional, and regulatory landscape of monolignol biosynthesis pathway in <i>Miscanthus</i> × <i>giganteus</i>.

Zeng Xiaofei X Sheng Jiajing J Zhu Fenglin F Wei Tianzi T Zhao Lingling L Hu Xiaohu X Zheng Xingfei X Zhou Fasong F Hu Zhongli Z Diao Ying Y Jin Surong S

Biotechnology for biofuels 20201027

<h4>Background</h4><i>Miscanthus</i> × <i>giganteus</i> is widely recognized as a promising lignocellulosic biomass crop due to its advantages of high biomass production, low environmental impacts, and the potential to be cultivated on marginal land. However, the high costs of bioethanol production still limit the current commercialization of lignocellulosic bioethanol. The lignin in the cell wall and its by-products released in the pretreatment step is the main component inhibiting the enzymati ...[more]

PMID: 33117433

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Project description:Small RNAs (21-24 nt) are pivotal regulators of gene expression that guide both transcriptional and post-transcriptional silencing mechanisms in diverse eukaryotes, including most if not all plants. MicroRNAs (miRNAs) and short interfering RNAs (siRNAs) are the two major types, both of which have a demonstrated and important role in plant development, stress responses and pathogen resistance. In this work, we used a deep sequencing approach (Sequencing-By-Synthesis, or SBS) to develop sequence resources of small RNAs from different Miscanthus x giganteus tissues (including leaves, flowers, and rhizomes). The high depth of the resulting datasets enabled us to examine in detail critical small RNA features such as size distribution, tissue-specific regulation and sequence conservation between different organs in this species. We also developed database resources and a dedicated website (http://smallrna.udel.edu/) with computational tools for allowing other users to identify new miRNAs or siRNAs involved in specific regulatory pathways, verify the degree of conservation of these sequences in other plant species and map small RNAs on genes or larger regions of the genome under study. Small RNA libraries were derived from leaves, flowers and rhizomes of Miscanthus x giganteus. Each tissue represented a mixture of developmental stages, with a bias towards those from early, actively differentiating cells. For rhizomes, the apical tip portion was collected. Total RNA was isolated using the Plant RNA Purification Reagent (Invitrogen) and submitted to Illumina (Hayward, CA, http://www.illumina.com) for small RNA library construction using approaches described in (Lu et al., 2007) with minor modifications. The small RNA libraries were sequenced with the Sequencing-By-Synthesis (SBS) technology by Illumina. PERL scripts were designed to remove the adapter sequences and determine the abundance of each distinct small RNA. We thank Steven Moose for providing the plant material and Kan Nobuta for assistance with the computational methods.

Dataset Information

Genetic, transcriptional, and regulatory landscape of monolignol biosynthesis pathway in Miscanthus?×?giganteus.

Publications

Genetic, transcriptional, and regulatory landscape of monolignol biosynthesis pathway in <i>Miscanthus</i> × <i>giganteus</i>.

Similar Datasets

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