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  1. Research: Contiguous and complete assemblies of Blastocystis gut microbiome–associated protists reveal evolutionary diversification to host ecology
    • Abigail L. Lind,
    • Nathan A. McDonald,
    • Elias R. Gerrick,
    • Ami S. Bhatt,
    • and Katherine S. Pollard
    Genome Res. June 2025 35: 1377-1390; Published in Advance April 22, 2025, doi:10.1101/gr.279080.124
    ..., microtubule motor genes, and signal transduction genes. Isolates from herbivorous tortoises contain higher numbers of plant carbohydrate-metabolizing enzymes, suggesting that, like gut bacteria, these protists ferment plant material in the host gut. We find evidence that some of these carbohydrate...
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  2. Research: Colibactin leads to a bacteria-specific mutation pattern and self-inflicted DNA damage
    • Emily Lowry,
    • Yiqing Wang,
    • Tal Dagan,
    • and Amir Mitchell
    Genome Res. August 2024 34: 1154-1164; Published in Advance August 16, 2024, doi:10.1101/gr.279517.124
    ...and suggests that the resistance protein encoded on the colibactin pathogenicity island is insufficient in preventing self-inflicted DNA damage.Competitive interactions are common in microbial communities, including the human gut microbiome (Kern et al. 2021). Secreted toxins that target neighboring microbes...
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  3. Research: The Chinese longsnout catfish genome provides novel insights into the feeding preference and corresponding metabolic strategy of carnivores
    • Yulong Liu,
    • Gang Zhai,
    • Jingzhi Su,
    • Yulong Gong,
    • Bingyuan Yang,
    • Qisheng Lu,
    • Longwei Xi,
    • Yutong Zheng,
    • Jingyue Cao,
    • Haokun Liu,
    • Junyan Jin,
    • Zhimin Zhang,
    • Yunxia Yang,
    • Xiaoming Zhu,
    • Zhongwei Wang,
    • Gaorui Gong,
    • Jie Mei,
    • Zhan Yin,
    • Rodolphe E. Gozlan,
    • Shouqi Xie,
    • and Dong Han
    Genome Res. July 2024 34: 981-996; Published in Advance August 9, 2024, doi:10.1101/gr.278476.123
    ...; Huang et al. 2021). These results demonstrate that different metabolic characteristics are responding to feeding habit traits at the genomic level. It should be noted there have been many studies on the relationship between the host gut microbiota and dietary habits (Liu et al. 2016; Xu et al. 2022...
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