Yanqiang Ding
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View article: High‐throughput generic single‐entity sequencing using droplet microfluidics
High‐throughput generic single‐entity sequencing using droplet microfluidics Open
Single‐cell sequencing has revolutionized our understanding of cellular heterogeneity by providing a micro‐level perspective in the past decade. While heterogeneity is fundamental to diverse biological communities, existing platforms are p…
View article: The effects of yeast fermentation on taste substance evolution and sensory development of dry-cured ham: The insights of peptidomics and metabolomics
The effects of yeast fermentation on taste substance evolution and sensory development of dry-cured ham: The insights of peptidomics and metabolomics Open
To investigate the mechanism of yeast fermentation on the evolution of taste substances of Jinhua ham, the effects of Rhodotorula mucilaginosa (B2, S13 and S38) and Candida parapsilosis (B10) fermentation on structural protei…
View article: Bacteroides fragilis promotes chemoresistance in colorectal cancer, and its elimination by phage VA7 restores chemosensitivity
Bacteroides fragilis promotes chemoresistance in colorectal cancer, and its elimination by phage VA7 restores chemosensitivity Open
View article: Mucus-inspired hydrogels with protonation-driven adhesion for extreme acidic conditions
Mucus-inspired hydrogels with protonation-driven adhesion for extreme acidic conditions Open
View article: Duckweed Evolution: from Land back to Water
Duckweed Evolution: from Land back to Water Open
Terrestialization is an important evolutionary process that plants experienced. However, little is known about how land plants acquired aquatic growth behaviors. Here we integrate multiproxy evidence to elucidate the evolution of the aquat…
View article: Tumor-resident probiotic Clostridium butyricum improves aPD-1 efficacy in colorectal cancer models by inhibiting IL-6-mediated immunosuppression
Tumor-resident probiotic Clostridium butyricum improves aPD-1 efficacy in colorectal cancer models by inhibiting IL-6-mediated immunosuppression Open
Most colorectal cancer (CRC) patients do not respond to immune checkpoint blockade (ICB) therapy. Here, we identify Clostridium butyricum as a probiotic that boosts anti-PD-1 efficacy in CRC. In orthotopic allografts of microsatellite inst…
View article: Bacteroides fragilis promotes chemoresistance in colorectal cancer, and its elimination by phage VA7 restores chemosensitivity
Bacteroides fragilis promotes chemoresistance in colorectal cancer, and its elimination by phage VA7 restores chemosensitivity Open
Chemoresistance is a main cause of colorectal cancer (CRC) treatment failure. We identified that Bacteroides fragilis is enriched in patients with CRC resistant to chemotherapy in two independent cohorts, and its abundance is associated wi…
View article: Duckweed: a starch-hyperaccumulating plant under cultivation with a combination of nutrient limitation and elevated CO2
Duckweed: a starch-hyperaccumulating plant under cultivation with a combination of nutrient limitation and elevated CO2 Open
Introduction The increasing global demand for starch has created an urgent need to identify more efficient and sustainable production methods. However, traditional starch sources, such as crop-based options, experience significant bottlene…
View article: The Two-Way Interaction of Tea Polyphenols with Gut Microbiota and their effect on Atherosclerosis
The Two-Way Interaction of Tea Polyphenols with Gut Microbiota and their effect on Atherosclerosis Open
View article: Peptostreptococcus anaerobius mediates anti-PD1 therapy resistance and exacerbates colorectal cancer via myeloid-derived suppressor cells in mice
Peptostreptococcus anaerobius mediates anti-PD1 therapy resistance and exacerbates colorectal cancer via myeloid-derived suppressor cells in mice Open
Bacteria such as the oral microbiome member Peptostreptococcus anaerobius can exacerbate colorectal cancer (CRC) development. Little is known regarding whether these immunomodulatory bacteria also affect antitumour immune checkpoint blocka…
View article: <i>Lactococcus lactis HkyuLL 10</i>suppresses colorectal tumourigenesis and restores gut microbiota through its generated alpha-mannosidase
<i>Lactococcus lactis HkyuLL 10</i>suppresses colorectal tumourigenesis and restores gut microbiota through its generated alpha-mannosidase Open
Objective Probiotic Lactococcus lactis is known to confer health benefits to humans. Here, we aimed to investigate the role of L. lactis in colorectal cancer (CRC). Design L. lactis abundance was evaluated in patients with CRC (n=489) and …
View article: PacBio sequencing of human fecal samples uncovers the DNA methylation landscape of 22 673 gut phages
PacBio sequencing of human fecal samples uncovers the DNA methylation landscape of 22 673 gut phages Open
Gut phages have an important impact on human health. Methylation plays key roles in DNA recognition, gene expression regulation and replication for phages. However, the DNA methylation landscape of gut phages is largely unknown. Here, with…
View article: Colorectal cancer–associated T cell receptor repertoire abnormalities are linked to gut microbiome shifts and somatic cell mutations
Colorectal cancer–associated T cell receptor repertoire abnormalities are linked to gut microbiome shifts and somatic cell mutations Open
As with many diseases, tumor formation in colorectal cancer (CRC) is multifactorial and involves immune, environmental factors and various genetics that contribute to disease development. Accumulating evidence suggests that the gut microbi…
View article: Correlation analysis of sucrose content with protein and oil content and QTL mapping of sucrose content in peanut
Correlation analysis of sucrose content with protein and oil content and QTL mapping of sucrose content in peanut Open
View article: High-throughput generic single-entity sequencing using droplet microfluidics
High-throughput generic single-entity sequencing using droplet microfluidics Open
Summary Single-cell sequencing has revolutionized our understanding of cellular heterogeneity by providing a micro-level perspective over the past decades. Although heterogeneity is essential for various biological communities, the current…
View article: METTL3 drives NAFLD-related hepatocellular carcinoma and is a therapeutic target for boosting immunotherapy
METTL3 drives NAFLD-related hepatocellular carcinoma and is a therapeutic target for boosting immunotherapy Open
Non-alcoholic fatty liver disease (NAFLD) is an emerging risk factor of hepatocellular carcinoma (HCC). However, the mechanism and target therapy of NAFLD-HCC are still unclear. Here, we identify that the N6-methyladenosine (m
View article: <i>Roseburia intestinalis</i> generated butyrate boosts anti-PD-1 efficacy in colorectal cancer by activating cytotoxic CD8 <sup>+</sup> T cells
<i>Roseburia intestinalis</i> generated butyrate boosts anti-PD-1 efficacy in colorectal cancer by activating cytotoxic CD8 <sup>+</sup> T cells Open
Objective Roseburia intestinalis is a probiotic species that can suppress intestinal inflammation by producing metabolites. We aimed to study the role of R. intestinalis in colorectal tumourigenesis and immunotherapy. Design R. intestinali…
View article: Bifidobacterium pseudolongum-generated acetate suppresses non-alcoholic fatty liver disease-associated hepatocellular carcinoma
Bifidobacterium pseudolongum-generated acetate suppresses non-alcoholic fatty liver disease-associated hepatocellular carcinoma Open
Non-alcoholic fatty liver disease-associated hepatocellular carcinoma (NAFLD-HCC) is an increasing healthcare burden worldwide. There is an urgent need to develop effective agents to prevent NAFLD-HCC progression. Herein, we show that the …
View article: Duckweed evolution: from land back to water
Duckweed evolution: from land back to water Open
Terrestialization is supposedly an important evolutionary process plant experience. However, directions of land back to water acquired little attention. Here we integrate multiproxy evidence to elucidate the evolution of duckweed. Three ge…
View article: Artificially cultivated duckweed: a high-efficiency starch producer
Artificially cultivated duckweed: a high-efficiency starch producer Open
The increasing demand for starch has been a social struggle. We report a new technology that efficiently produces starch from duckweed. Although Landoltia punctata has a dramatic contraction of gene families, its starch content and product…
View article: Intratumoral Bacteria Dysbiosis Is Associated with Human Papillary Thyroid Cancer and Correlated with Oncogenic Signaling Pathways
Intratumoral Bacteria Dysbiosis Is Associated with Human Papillary Thyroid Cancer and Correlated with Oncogenic Signaling Pathways Open
Emerging evidence suggests that microbial dysbiosis plays vital roles in many human cancers. However, knowledge of whether the microbial community in thyroid tumor is related to tumorigenesis remains elusive. In this study, we aimed to exp…
View article: Targeting m <sup>6</sup> A reader YTHDF1 augments antitumour immunity and boosts anti-PD-1 efficacy in colorectal cancer
Targeting m <sup>6</sup> A reader YTHDF1 augments antitumour immunity and boosts anti-PD-1 efficacy in colorectal cancer Open
Objective The role of N 6 -methyladenosine (m 6 A) in tumour immune microenvironment (TIME) remains understudied. Here, we elucidate function and mechanism of YTH N 6 -methyladenosine RNA binding protein 1 (YTHDF1) in colorectal cancer (CR…
View article: methylation_information.txt
methylation_information.txt Open
methylation information
View article: High Sensitivity of Shotgun Metagenomic Sequencing in Colon Tissue Biopsy by Host DNA Depletion
High Sensitivity of Shotgun Metagenomic Sequencing in Colon Tissue Biopsy by Host DNA Depletion Open
The high host genetic background of tissue biopsies hinders the application of shotgun metagenomic sequencing in characterizing the tissue microbiota. We proposed an optimized method that removed host DNA from colon biopsies and examined t…
View article: IDDF2022-ABS-0075 Bifidobacterium pseudolongum and its generated acetate suppress non-alcoholic fatty liver disease-associated hepatocellular carcinoma
IDDF2022-ABS-0075 Bifidobacterium pseudolongum and its generated acetate suppress non-alcoholic fatty liver disease-associated hepatocellular carcinoma Open
Background Gut microbiome and its metabolites may play roles in non-alcoholic fatty liver disease-associated hepatocellular carcinoma (NAFLD-HCC). We aimed to investigate the specific beneficial bacteria species as novel prophylaxis for NA…
View article: Meta-analysis of mucosal microbiota reveals universal microbial signatures and dysbiosis in gastric carcinogenesis
Meta-analysis of mucosal microbiota reveals universal microbial signatures and dysbiosis in gastric carcinogenesis Open
The consistency of the associations between gastric mucosal microbiome and gastric cancer across studies remained unexamined. We aimed to identify universal microbial signatures in gastric carcinogenesis through a meta-analysis of gastric …
View article: Uncovering 1058 Novel Human Enteric DNA Viruses Through Deep Long-Read Third-Generation Sequencing and Their Clinical Impact
Uncovering 1058 Novel Human Enteric DNA Viruses Through Deep Long-Read Third-Generation Sequencing and Their Clinical Impact Open
View article: 441: UNCOVERING 1,058 NOVEL HUMAN ENTERIC DNA VIRUSES THROUGH DEEP LONG-READ THIRD-GENERATION SEQUENCING AND THEIR CLINICAL IMPACT
441: UNCOVERING 1,058 NOVEL HUMAN ENTERIC DNA VIRUSES THROUGH DEEP LONG-READ THIRD-GENERATION SEQUENCING AND THEIR CLINICAL IMPACT Open
View article: 2022-nature microbiology-Host and gut bacteria.pdf
2022-nature microbiology-Host and gut bacteria.pdf Open
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View article: Multi-Omics Reveal the Efficient Phosphate-Solubilizing Mechanism of Bacteria on Rocky Soil
Multi-Omics Reveal the Efficient Phosphate-Solubilizing Mechanism of Bacteria on Rocky Soil Open
Phosphate-solubilizing bacteria (PSB) can alleviate available phosphorus (AP)-deficiency without causing environmental pollution like chemical phosphate fertilizers. However, the research and application of PSB on the barren rocky soil is …