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Fungal CAZyme Genomics and Bioinformatics
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Fungal CAZyme Genomics and Bioinformatics

A special issue of Journal of Fungi (ISSN 2309-608X). This special issue belongs to the section "Fungal Genomics, Genetics and Molecular Biology".

Deadline for manuscript submissions: closed (10 September 2023) | Viewed by 2384

Special Issue Editor

Dr. Yanbin Yin

E-Mail Website
Guest Editor
Department of Food Science and Technology, Nebraska Food for Health Center, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
Interests: bioinformatics and evolutionary genomics; computational microbiomics; carbohydrate metabolism

Special Issue Information

Dear Colleagues,

Plant-associated fungi are among the most efficient plant lignocellulosic biomass degraders. Fungal CAZymes play a critical role in global carbon recycling in forest and grassland, plant diseases in agriculture, and biofuel and biomaterial production in biotechnology. All these are attributed to the numerous CAZymes encoded in the fungal genomes. Over 2000 fungal genomes have been sequenced, and many more are in the pipeline. This is an exciting time for fungal genomics and bioinformatics to discover new CAZymes and study their functional divergence by comparative and evolutionary genomics, as well as develop new fungal CAZyme bioinformatics tools.

This Special Issue aims to publish research and review papers focusing on all aspects of fungal CAZyme genomics and bioinformatics. The topics may include but not be limited to the following as long as the focus is on CAZymes:

  1. New fungal genomes and metagenomes;
  2. Comparative and evolutionary genomics;
  3. Experimental characterization of new CAZyme families and subfamilies;
  4. New bioinformatics tools (computer programs, databases, and servers). 

Dr. Yanbin Yin
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Journal of Fungi is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • CAZyme
  • carbohydrate
  • lignin
  • lignocellulose
  • plant cell wall
  • genomics
  • bioinformatics
  • mycobiome

Published Papers (1 paper)

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Research

19 pages, 3351 KiB  
Article
In Silico Characterization of the Secretome of the Fungal Pathogen Thielaviopsis punctulata, the Causal Agent of Date Palm Black Scorch Disease
by Biju Vadakkemukadiyil Chellappan, Sherif Mohamed El-Ganainy, Hind Salih Alrajeh and Hashem Al-Sheikh
J. Fungi 2023, 9(3), 303; https://doi.org/10.3390/jof9030303 - 27 Feb 2023
Cited by 2 | Viewed by 1978
Abstract
The black scorch disease of date palm caused by Thielaviopsis punctulata is a serious threat to the cultivation and productivity of date palm in Arabian Peninsula. The virulence factors that contribute to pathogenicity of T. punctulata have not been identified yet. In the [...] Read more.
The black scorch disease of date palm caused by Thielaviopsis punctulata is a serious threat to the cultivation and productivity of date palm in Arabian Peninsula. The virulence factors that contribute to pathogenicity of T. punctulata have not been identified yet. In the present study, using bioinformatics approach, secretory proteins of T. punctulata were identified and functionally characterized. A total of 197 putative secretory proteins were identified, of which 74 were identified as enzymes for carbohydrate degradation (CAZymes), 25 were proteases, and 47 were predicted as putative effectors. Within the CAZymes, 50 cell wall-degrading enzymes, potentially to degrade cell wall components such as cellulose, hemicellulose, lignin, and pectin, were identified. Of the 47 putative effectors, 34 possessed at least one functional domain. The secretome of T. punctulata was compared to the predicted secretome of five closely related species (T. musarum, T. ethacetica, T. euricoi, T. cerberus, and T. populi) and identified species specific CAZymes and putative effector genes in T. punctulata, providing a valuable resource for the research aimed at understanding the molecular mechanism underlying the pathogenicity of T. punctulata on Date palm. Full article
(This article belongs to the Special Issue Fungal CAZyme Genomics and Bioinformatics)
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