Search bioRxiv⌕ Search

bioRxiv · 10.1101/2025.07.13.663496

Gut microbiota and bile acids changes in MASLD mice model with hepatic PLD1 knockout

Abstract

Hepatocyte phospholipase D1 (PLD1) knockout alleviated metabolic dysfunction-associated steatotic liver disease (MASLD) in mice, but the underlying mechanism is largely unknown. In this study, high-fat diet is fed to wild type (Con) and hepatocyte PLD1 knockout (Con_KO) mice to establish MASLD model (HFHC and HFHC_KO). Intestinal contents of mice are analyzed via metagenomics and metabolomics, the liver bile acids are assessed by mass spectrometry imaging. At phylum level, Bacillota in the intestines of MASLD model mice are significantly increased and Bacteroidota are significantly decreased. However, after the deletion of hepatocyte PLD1, Pseudomonadota and Candidatus Bathyarchaeota are significantly decreased in the MASLD model mice. Then at species level, compared with Con group, the Faecalibaculum rodentium is significantly increased in HFHC group, in which hepatocyte PLD1 knockout causes Desulfovibrionaceae bacterium LT0009 and Lachnospiraceae bacterium 10-1 to significantly decrease. As for intestinal bile acids, two bile acids (Hyodeoxycholic acid and Glycolithocholic acid) are found to be different between the HFHC_KO group and the HFHC group. Association analysis shows the Faecalibaculum co-occurs with DCA, {beta}MCA, {Omega}MCA and MCA, while probiotic Bacteroides uniformis is significantly correlated with UDCA, 12-KetoLCA, 7-KetoLCA. Finally, mass spectrometry imaging reveals that TCA and TDCA in liver are significantly decreased after hepatocyte PLD1 knockout. These findings demonstrate that hepatocyte PLD1 knockout alters gut microbiota and bile acids profiles, suggesting PLD1 deficiency may modulate MASLD progression by changing intestinal microbiota-bile acid homeostasis. HighlightsHere, we show that hepatocyte PLD1 knockout alters gut microbiota and bile acid profiles in metabolic fatty liver disease mouse by high-fat diet. O_LIWild type (Con) and hepatocyte PLD1 knockout (Con_KO) mice were used to establish HFHC and HFHC_KO models, respectively. C_LIO_LIIntestinal contents were collected for metagenomic and metabolomics analysis, and liver tissues were taken for mass spectrometry imaging to investigate gut microbiota-bile acid relationships. C_LIO_LIIn HFHC_KO mice, Desulfovibrionaceae bacterium LT0009 and Lachnospiraceae bacterium 10-1 were significantly reduced, accompanied by altered HDCA and GLCA. C_LIO_LIAssociation analysis revealed Faecalibaculum co-occurred with DCA, {beta}MCA, {Omega}MCA, and MCA, while Bacteroides uniformis was significantly associated with UDCA, 12-KetoLCA, and 7-KetoLCA. C_LIO_LIMass spectrometry imaging showed hepatocyte PLD1 knockout significantly decreased liver TCA and TDCA, suggesting PLD1 deficiency may modulates MASLD progression via microbiota-bile acid homeostasis. C_LI O_FIG O_LINKSMALLFIG WIDTH=199 HEIGHT=200 SRC="FIGDIR/small/663496v1_ufig1.gif" ALT="Figure 1"> View larger version (36K): org.highwire.dtl.DTLVardef@1b5bfa8org.highwire.dtl.DTLVardef@139ed05org.highwire.dtl.DTLVardef@1f7e905org.highwire.dtl.DTLVardef@e34b59_HPS_FORMAT_FIGEXP M_FIG C_FIG

Source connections

Explore related subjects

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Zhao, Y., Wang, H., Lin, W., Cao, L.. 2025-07-13. Gut microbiota and bile acids changes in MASLD mice model with hepatic PLD1 knockout. https://doi.org/10.1101/2025.07.13.663496

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related preprints

aaRSID, an engineered pyrrolysyl-tRNA synthetase platform for multi-probe proximity proteomics

Proximity labeling (PL) methods utilize spatially targeted chemical or enzymatic generation of a diffusible, reactive intermediate to covalently tag neighboring proteins in living systems. Unlike other tools for studying molecular interactions, PL can detect transient protein relationships with high spatial and temporal sensitivity, allowing for insight into their roles in biological processes. However, current enzymatic PL tools, such as TurboID and APEX2, are limited by their substrate structure and chemistry, which can generate significant background and/or perturb cellular physiology. To address these limitations, we have developed aminoacyl-tRNA synthetase ID (aaRSID), a PL tool that leverages an engineered pyrrolysyl tRNA synthetase (PylRS) for proximity labeling of proteins. We chose PylRS because it can catalyze promiscuous lysine labeling in the absence of its cognate tRNA and utilize a variety of non-canonical amino acids (ncAAs) as substrates. Here, we demonstrate aaRSID's intrinsic proximity labeling activity, use directed evolution to improve this activity, and apply the improved mutant (aaRSID-Ma1.3) for subcellular proteomics and multiplexed imaging. Our work establishes aminoacyl-tRNA synthetases as a new PL enzyme class and introduces a versatile chemical platform for developing ncAA-derived probes to map cellular microenvironments, greatly expanding the applications possible of PL technology.

biochemistry↗

Cellular uptake of folate-olaparib conjugates via folate receptor-mediated endocytosis: Potential for selective delivery of DNA damage response inhibitors into tumour cells

The folate receptor (FR) is overexpressed in a range of human tumours including ovarian cancer cells. We propose that the overexpression of the FR on the surface of ovarian tumour cells could be exploited for the selective delivery of a DNA damage response inhibitor (DDRi) in the form of an intact folate drug conjugate (FDC). This approach would improve the therapeutic index of the parent DDRi facilitating combination studies of the DDRi-based FDC with DNA damaging chemotherapy. FR-mediated cellular uptake of the proposed folate drug conjugates is requisite for FDC selective delivery into tumours. In this study, we synthesised a series of olaparib-based folate conjugates that maintained the biochemical PARP1 inhibition associated with olaparib and showed binding affinity for the folate receptor. Significantly, we identified compounds 10b and 11 that selectively enter FR overexpressing tumour cells via folate receptor-mediated endocytosis in their intact form and engage with their target as demonstrated by the potent inhibition of PARylation (KB cells, PARylation IC50 = 5.7 and 3.9 nM; respectively).

biochemistry↗

Architecture and Energy Transfer of the Bacterial Photosynthetic Unit

In phototrophic organisms, pigment-protein membrane complexes are densely packed to form photosynthetic units (PSUs) that capture solar energy and convert it into chemical energy. Although the structures of many individual photosynthetic complexes have been resolved, how they are arranged and interact with others within photosynthetic membranes to enable efficient excitation energy transfer (EET) remains poorly understood. Here, we report cryo-electron microscopy structures of PSU supercomplex assemblies from the phototrophic a-proteobacterium Rhodovulum viride, including an RC-LH1 core associated with one or two peripheral LH2 complexes and a curved LH2 tetramer. These membrane-derived assemblies define the relative positions and orientations of neighboring photosynthetic complexes and place their pigment arrays in proximity across antenna-antenna and antenna-core interfaces. Structure-based simulations identify potential EET pathways within the PSU assemblies and reveal rapid energy transfer across both LH2-LH2 and LH2-LH1 interfaces. Collectively, these findings provide insights into the assembly and structural modularity of bacterial PSUs and elucidate how the lateral organization of membrane protein complexes facilitates efficient energy transfer. This work extends structural studies of bacterial photosynthesis from individual complexes to their native higher-order assembly, providing a framework for understanding how photosynthetic supercomplex organization shapes energy migration and for guiding the design of artificial photosynthesis.

biochemistry↗