Literature DB >> 32622559

Challenges of Studying the Human Virome - Relevant Emerging Technologies.

Mohammadali Khan Mirzaei1, Jinling Xue1, Rita Costa1, Jinlong Ru1, Sarah Schulz1, Zofia E Taranu2, Li Deng3.   

Abstract

In this review we provide an overview of current challenges and advances in bacteriophage research within the growing field of viromics. In particular, we discuss, from a human virome study perspective, the current and emerging technologies available, their limitations in terms of de novo discoveries, and possible solutions to overcome present experimental and computational biases associated with low abundance of viral DNA or RNA. We summarize recent breakthroughs in metagenomics assembling tools and single-cell analysis, which have the potential to increase our understanding of phage biology, diversity, and interactions with both the microbial community and the human body. We expect that these recent and future advances in the field of viromics will have a strong impact on how we develop phage-based therapeutic approaches.
Copyright © 2020 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  bacteriophages; computational tools; host range; human virome; multi-omics; phage de novo discoveries

Year:  2020        PMID: 32622559     DOI: 10.1016/j.tim.2020.05.021

Source DB:  PubMed          Journal:  Trends Microbiol        ISSN: 0966-842X            Impact factor:   17.079


  12 in total

Review 1.  Metaviromics coupled with phage-host identification to open the viral 'black box'.

Authors:  Kira Moon; Jang-Cheon Cho
Journal:  J Microbiol       Date:  2021-02-23       Impact factor: 3.422

Review 2.  The female reproductive tract virome: understanding the dynamic role of viruses in gynecological health and disease.

Authors:  Ferralita S Madere; Cynthia L Monaco
Journal:  Curr Opin Virol       Date:  2021-11-17       Impact factor: 7.090

Review 3.  Revolutionized virome research using systems microbiology approaches.

Authors:  Suwalak Chitcharoen; Pavaret Sivapornnukul; Sunchai Payungporn
Journal:  Exp Biol Med (Maywood)       Date:  2022-06-20

4.  ITN-VIROINF: Understanding (Harmful) Virus-Host Interactions by Linking Virology and Bioinformatics.

Authors:  Winfried Goettsch; Niko Beerenwinkel; Li Deng; Lars Dölken; Bas E Dutilh; Florian Erhard; Lars Kaderali; Max von Kleist; Roland Marquet; Jelle Matthijnssens; Shawna McCallin; Dino McMahon; Thomas Rattei; Ronald P Van Rij; David L Robertson; Martin Schwemmle; Noam Stern-Ginossar; Manja Marz
Journal:  Viruses       Date:  2021-04-27       Impact factor: 5.818

5.  Sewage and sewage-contaminated environments are the most prominent sources to isolate phages against Pseudomonas aeruginosa.

Authors:  Bahareh Lashtoo Aghaee; Mohammadali Khan Mirzaei; Mohammad Yousef Alikhani; Ali Mojtahedi
Journal:  BMC Microbiol       Date:  2021-05-01       Impact factor: 3.605

6.  The dark side of the gut: Virome-host interactions in intestinal homeostasis and disease.

Authors:  Yuhao Li; Scott A Handley; Megan T Baldridge
Journal:  J Exp Med       Date:  2021-05-03       Impact factor: 14.307

Review 7.  Clinical and experimental bacteriophage studies: Recommendations for possible approaches for standing against SARS-CoV-2.

Authors:  Khashayar Shahin; Lili Zhang; Mohammad Hossein Mehraban; Jean-Marc Collard; Abolghasem Hedayatkhah; Mojtaba Mansoorianfar; Abbas Soleimani-Delfan; Ran Wang
Journal:  Microb Pathog       Date:  2022-02-10       Impact factor: 3.738

8.  Stochastic neutral drifts seem prevalent in driving human virome assembly: Neutral, near-neutral and non-neutral theoretic analyses.

Authors:  Zhanshan Sam Ma; Jiandong Mei
Journal:  Comput Struct Biotechnol J       Date:  2022-03-30       Impact factor: 6.155

9.  VirionFinder: Identification of Complete and Partial Prokaryote Virus Virion Protein From Virome Data Using the Sequence and Biochemical Properties of Amino Acids.

Authors:  Zhencheng Fang; Hongwei Zhou
Journal:  Front Microbiol       Date:  2021-02-05       Impact factor: 5.640

10.  Sustainable Microbiome: a symphony orchestrated by synthetic phages.

Authors:  Mohammadali Khan Mirzaei; Li Deng
Journal:  Microb Biotechnol       Date:  2020-11-10       Impact factor: 5.813

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