Browsing by Author "Xie Z"

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    Characterizing the dynamics of the rumen microbiota, its metabolites, and blood metabolites across reproductive stages in Small-tailed Han sheep.
    (American Society for Microbiology, 2023-11-10) Sha Y; Liu X; Pu X; He Y; Wang J; Zhao S; Shao P; Wang F; Xie Z; Chen X; Yang W
    Different reproductive stages of mammals involve complex biological processes, and the intestinal microbiota, as an endocrine organ or an “invisible organ,” is involved in the regulation of hormone levels, immune function, and metabolism. However, the effects of the rumen microbiota, its metabolites, and blood metabolites on the reproductive performance of ruminants remain unclear. This study revealed that the Prevotella abundance increased significantly during pregnancy (P < 0.01); the Fibrobacter abundance increased significantly during lactation (P < 0.05); and rumen microbial carbohydrate metabolism, glucose biosynthesis, and metabolic functions were significantly enriched during pregnancy (P < 0.05). Microbial metabolic profile analysis showed that the differentially abundant microbial metabolites during pregnancy and lactation were mainly enriched in the biosynthesis of ubiquinone and other terpenoid quinones, and there was a certain correlation with the microbiota. Among them, sapindoside A was increased during pregnancy, nicotinamide riboside and β-cryptoxanthin were reduced during pregnancy, and L-tryptophan was significantly increased during lactation. In addition, the volatile fatty acid levels in lactation were significantly higher than those in non-pregnancy and pregnancy (P < 0.05), and the NH3-N content during pregnancy was significantly higher than that during lactation and non-pregnancy (P < 0.05). Moreover, there were differences in the serum metabolite levels at different reproductive stages, and similar metabolites existed when comparing the rumen metabolites, which were mainly enriched in arachidonic acid metabolism, vitamin B6 metabolism, and ABC transporter protein, resulting in significantly higher serum IgA and IgM levels during lactation than during non-pregnancy and pregnancy (P < 0.05).
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    Global fine-resolution data on springtail abundance and community structure
    (Springer Nature Limited, 2024-01-03) Potapov AM; Chen T-W; Striuchkova AV; Alatalo JM; Alexandre D; Arbea J; Ashton T; Ashwood F; Babenko AB; Bandyopadhyaya I; Baretta CRDM; Baretta D; Barnes AD; Bellini BC; Bendjaballah M; Berg MP; Bernava V; Bokhorst S; Bokova AI; Bolger T; Bouchard M; Brito RA; Buchori D; Castaño-Meneses G; Chauvat M; Chomel M; Chow Y; Chown SL; Classen AT; Cortet J; Čuchta P; de la Pedrosa AM; De Lima ECA; Deharveng LE; Doblas Miranda E; Drescher J; Eisenhauer N; Ellers J; Ferlian O; Ferreira SSD; Ferreira AS; Fiera C; Filser J; Franken O; Fujii S; Koudji EG; Gao M; Gendreau-Berthiaume B; Gers C; Greve M; Hamra-Kroua S; Handa IT; Hasegawa M; Heiniger C; Hishi T; Holmstrup M; Homet P; Høye TT; Ivask M; Jacques B; Janion-Scheepers C; Jochum M; Joimel S; Jorge BCS; Juceviča E; Kapinga EM; Kováč Ľ; Krab EJ; Krogh PH; Kuu A; Kuznetsova N; Lam WN; Lin D; Lindo Z; Liu AWP; Lu J-Z; Luciáñez MJ; Marx MT; Mawan A; McCary MA; Minor MA; Mitchell GI; Moreno D; Nakamori T; Negri I; Nielsen UN; Ochoa-Hueso R; Oliveira Filho LCI; Palacios-Vargas JG; Pollierer MM; Ponge J-F; Potapov MB; Querner P; Rai B; Raschmanová N; Rashid MI; Raymond-Léonard LJ; Reis AS; Ross GM; Rousseau L; Russell DJ; Saifutdinov RA; Salmon S; Santonja M; Saraeva AK; Sayer EJ; Scheunemann N; Scholz C; Seeber J; Shaw P; Shveenkova YB; Slade EM; Stebaeva S; Sterzynska M; Sun X; Susanti WI; Taskaeva AA; Tay LS; Thakur MP; Treasure AM; Tsiafouli M; Twala MN; Uvarov AV; Venier LA; Widenfalk LA; Widyastuti R; Winck B; Winkler D; Wu D; Xie Z; Yin R; Zampaulo RA; Zeppelini D; Zhang B; Zoughailech A; Ashford O; Klauberg-Filho O; Scheu S
    Springtails (Collembola) inhabit soils from the Arctic to the Antarctic and comprise an estimated ~32% of all terrestrial arthropods on Earth. Here, we present a global, spatially-explicit database on springtail communities that includes 249,912 occurrences from 44,999 samples and 2,990 sites. These data are mainly raw sample-level records at the species level collected predominantly from private archives of the authors that were quality-controlled and taxonomically-standardised. Despite covering all continents, most of the sample-level data come from the European continent (82.5% of all samples) and represent four habitats: woodlands (57.4%), grasslands (14.0%), agrosystems (13.7%) and scrublands (9.0%). We included sampling by soil layers, and across seasons and years, representing temporal and spatial within-site variation in springtail communities. We also provided data use and sharing guidelines and R code to facilitate the use of the database by other researchers. This data paper describes a static version of the database at the publication date, but the database will be further expanded to include underrepresented regions and linked with trait data.
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    Globally invariant metabolism but density-diversity mismatch in springtails
    (Springer Nature Limited, 2023-02-07) Potapov AM; Guerra CA; van den Hoogen J; Babenko A; Bellini BC; Berg MP; Chown SL; Deharveng L; Kováč Ľ; Kuznetsova NA; Ponge J-F; Potapov MB; Russell DJ; Alexandre D; Alatalo JM; Arbea JI; Bandyopadhyaya I; Bernava V; Bokhorst S; Bolger T; Castaño-Meneses G; Chauvat M; Chen T-W; Chomel M; Classen AT; Cortet J; Čuchta P; Manuela de la Pedrosa A; Ferreira SSD; Fiera C; Filser J; Franken O; Fujii S; Koudji EG; Gao M; Gendreau-Berthiaume B; Gomez-Pamies DF; Greve M; Tanya Handa I; Heiniger C; Holmstrup M; Homet P; Ivask M; Janion-Scheepers C; Jochum M; Joimel S; Claudia S Jorge B; Jucevica E; Ferlian O; Iuñes de Oliveira Filho LC; Klauberg-Filho O; Baretta D; Krab EJ; Kuu A; de Lima ECA; Lin D; Lindo Z; Liu A; Lu J-Z; Luciañez MJ; Marx MT; McCary MA; Minor MA; Nakamori T; Negri I; Ochoa-Hueso R; Palacios-Vargas JG; Pollierer MM; Querner P; Raschmanová N; Rashid MI; Raymond-Léonard LJ; Rousseau L; Saifutdinov RA; Salmon S; Sayer EJ; Scheunemann N; Scholz C; Seeber J; Shveenkova YB; Stebaeva SK; Sterzynska M; Sun X; Susanti WI; Taskaeva AA; Thakur MP; Tsiafouli MA; Turnbull MS; Twala MN; Uvarov AV; Venier LA; Widenfalk LA; Winck BR; Winkler D; Wu D; Xie Z; Yin R; Zeppelini D; Crowther TW; Eisenhauer N; Scheu S
    Soil life supports the functioning and biodiversity of terrestrial ecosystems. Springtails (Collembola) are among the most abundant soil arthropods regulating soil fertility and flow of energy through above- and belowground food webs. However, the global distribution of springtail diversity and density, and how these relate to energy fluxes remains unknown. Here, using a global dataset representing 2470 sites, we estimate the total soil springtail biomass at 27.5 megatons carbon, which is threefold higher than wild terrestrial vertebrates, and record peak densities up to 2 million individuals per square meter in the tundra. Despite a 20-fold biomass difference between the tundra and the tropics, springtail energy use (community metabolism) remains similar across the latitudinal gradient, owing to the changes in temperature with latitude. Neither springtail density nor community metabolism is predicted by local species richness, which is high in the tropics, but comparably high in some temperate forests and even tundra. Changes in springtail activity may emerge from latitudinal gradients in temperature, predation and resource limitation in soil communities. Contrasting relationships of biomass, diversity and activity of springtail communities with temperature suggest that climate warming will alter fundamental soil biodiversity metrics in different directions, potentially restructuring terrestrial food webs and affecting soil functioning.
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    Multi-omics revealed rumen microbiota metabolism and host immune regulation in Tibetan sheep of different ages
    (Frontiers Media S.A., 2024-02-13) Sha Y; Liu X; He Y; Zhao S; Hu J; Wang J; Li W; Shao P; Wang F; Chen X; Yang W; Xie Z; Chen Z
    The rumen microbiota and metabolites play an important role in energy metabolism and immune regulation of the host. However, the regulatory mechanism of rumen microbiota and metabolite interactions with host on Tibetan sheep's plateau adaptability is still unclear. We analyzed the ruminal microbiome and metabolome, host transcriptome and serum metabolome characteristics of Tibetan sheep at different ages. Biomarkers Butyrivibrio, Lachnospiraceae_XPB1014_group, Prevotella, and Rikenellaceae_RC9_gut_group were found in 4 months, 1.5 years, 3.5 years, and 6 years Tibetan sheep, respectively. The rumen microbial metabolites were mainly enriched in galactose metabolism, unsaturated fatty acid biosynthesis and fatty acid degradation pathways, and had significant correlation with microbiota. These metabolites further interact with mRNA, and are co-enriched in arginine and proline metabolism, metabolism of xenobiotics by cytochrome P450, propanoate metabolism, starch and sucrose metabolism, gap junction pathway. Meanwhile, serum metabolites also have a similar function, such as chemical carcinogenesis - reactive oxygen species, limonene and pinene degradation, and cutin, suberine and wax biosynthesis, thus participating in the regulation of the body's immune and energy-related metabolic processes. This study systematically revealed that rumen microbiota, metabolites, mRNA and serum metabolites of Tibetan sheep were involved in the regulation of fermentation metabolic function and immune level of Tibetan sheep at different ages, which provided a new perspective for plateau adaptability research of Tibetan sheep at different ages.