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    Home > Biochemistry News > Microbiology News > 【Nature sub-issue】Two articles in a row! Ma Yingfei's team excavated human intestinal archaea virus; Development of high-throughput preparation of chassis bacteriophages

    【Nature sub-issue】Two articles in a row! Ma Yingfei's team excavated human intestinal archaea virus; Development of high-throughput preparation of chassis bacteriophages

    • Last Update: 2023-02-03
    • Source: Internet
    • Author: User
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    This article is the original of Translational Medicine Network, please indicate the source for reprinting

    Author: Mia

    The human gut microbiome has been extensively explored, while archaeal viruses remain largely unknown
    Recently, Ma Yingfei's team from Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences conducted a comprehensive analysis
    of archaeal viruses and existing virus sets from the human intestinal metagenomics.

    Recently, the team of Ma Yingfei of Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, published a research paper
    entitled "Metagenomic analysis reveals unexplored diversity of archaeal virome in the human gut" in Nature Communications 。 The study found a high diversity of human gut archaea and archaeal viruses, and this study will help to better characterize archaeal viruses in the human gut and their archaeal hosts, and provide a complementary view
    of the human gut microbiome.


    In addition, Ma Yingfei's team recently published a high-throughput method
    for preparing chassis bacteriophages.
    The team developed an iterative phage genome simplification (CiPGr) method based on CRISPR/cas9, which successfully simplified four different tailed phage (T7, T4, seszw, and selz) genomes, resulting in their chassis phages, non-essential gene sets, and genomic simplified phages
    with stronger infection capabilities than wild-type infections.


    Human enteric archaea viruses have rarely been studied


    The human gut microbiota is closely
    related to human health.
    In addition to the major bacterial components, non-bacterial members of the gut microbiota (archaea, fungi, and viruses) are known to play important roles
    in microbiome dynamics and human physiology, immunity, disease, and more.
    Archaea are also one of the symbiotic microorganisms that live in other organ systems of the human body, commonly found in the respiratory tract, mouth, and skin
    However, human-related archaea are often overlooked because they are relatively low in abundance compared to bacteria and most are not

    Microbial viruses control the composition and metabolism
    of microbial communities.
    To date, the dynamics of bacterial viruses in the human gut have been studied in detail, but few studies have reported the discovery of human enteric archaeal viruses, which remain very mysterious
    In this study, the researchers used culture-independent methods, such as next-generation sequencing, to help capture their identities to perform extensive assessments
    of the human archaeome and archaeal viral me.

    Key findings


    The researchers used spacer sequences and viral signatures from the archaeal CRISPR-Cas system to explore archaeal viruses
    in the human gut.
    First, large-scale identification
    of archaeal genome contigs of 2971 metagenomics from previously published studies was performed.
    The researchers then obtained spacers
    from 1162 archaeal genomes from the identified archaeal genome contigs and UHGG (Unified Human Gastrointestinal Genome).
    Based on archaeal spacer collection and protein homologous signatures present in archaeal viruses, this study established a detection pipeline for archaeal viruses and obtained 1279 archaeal viruses
    in the human gut.

    Of all the enteric archaeal viruses identified, M.
    smithii archaea virus has the most functional diversity, containing a total of 1034 proteins with different functions, including those related to structure, packaging, cleavage, DNA binding, and replication, while some other archaeal viruses lack functional proteins
    specific to these viruses 。 In addition, the research team used CheckV to conduct genome-wide testing of representative sequences of 36 archaeal viruses in the Human Intestinal Archaea Virus Database (HGAVD), and found that a total of 23 sequences carried the PeiW (pseudomurein endoisopeptidase) gene, indicating the importance of the PeiW gene for viral infection of
    methanogenic archaea.

    Functional characteristics of the HGAVD virus

    Research significance


    In summary, in this study, the research team conducted comprehensive metagenomic data mining of archaea and archaeal viruses in the human gut, revealing the diversity
    of archaeal viruses and archaea in the human gut.
    The large diversity of untapped archaeal viruses in the human gut and the new virus species found in HGAVD fill the gap in this field and serve as an extension
    of human enteric archaeal viruses.
    The research data, along with bacteria and bacterial phages, will provide a complementary view of the human enterovirus population, helping us better understand the human enteric ecosystem




    Note: This article is intended to introduce the progress of medical research and cannot be used as a reference
    for treatment options.
    If you need health guidance, please go to a regular hospital

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