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Cited by (1,027)

Items 201–300 of 1,027

1. Convergent regulatory evolution and loss of flight in paleognathous birds
   Sackton, Timothy B., Grayson, Phil, Cloutier, Alison, Hu, Zhirui, Liu, Jun S., Wheeler, Nicole E., Gardner, Paul P., Clarke, Julia A., Baker, Allan J., Clamp, Michele et al. · 2019 · Science
2. Microbiota-derived lantibiotic restores resistance against vancomycin-resistant Enterococcus
   Sohn G. Kim, Simone Becattini, Thomas U. Moody, Pavel V. Shliaha, Eric R. Littmann, Ruth Seok, Mergim Gjonbalaj, Vincent P. Eaton, Emily Fontana, Luigi A. Amoretti et al. · 2019 · Nature
3. Genome diversification in globally distributed novel marine Proteobacteria is linked to environmental adaptation
   Zhichao Zhou, Patricia Q. Tran, Kristopher Kieft, Karthik Anantharaman · 2020 · The ISME Journal
4. CAMPR4: a database of natural and synthetic antimicrobial peptides
   Ulka Gawde, Shuvechha Chakraborty, Faiza Hanif Waghu, Ram Shankar Barai, Ashlesha Khanderkar, Rishikesh Indraguru, Tanmay Shirsat, Susan Idicula‐Thomas · 2022 · Nucleic Acids Research
5. Elucidating selection processes for antibiotic resistance in sewage treatment plants using metagenomics
   Johan Bengtsson‐Palme, Rickard Hammarén, Chandan Pal, Marcus Östman, Berndt Björlenius, Carl‐Fredrik Flach, Jerker Berglund Fick, Erik Kristiansson, Mats Tysklind, D. G. Joakim Larsson · 2016 · The Science of The Total Environment
6. A heterochromatin-dependent transcription machinery drives piRNA expression
   Andersen, Peter Refsing, Tirian, Laszlo, Vunjak, Milica, Brennecke, Julius · 2017 · Nature
7. SIFTS: Structure Integration with Function, Taxonomy and Sequences resource
   Sameer S Velankar, Jose M Dana, Julius O.B. Jacobsen, Glen van Ginkel, Paul J. Gane, Jie Luo, Thomas J. Oldfield, Claire O’Donovan, Maria Jesus Martin, Gerard J. Kleywegt · 2012 · Nucleic Acids Research
8. Exploring functional contexts of symbiotic sustain within lichen-associated bacteria by comparative omics
   Martín Grube, Tomislav Cernava, Jung Soh, Stephan Fuchs, Ines Aline Aschenbrenner, Christian Lassek, Uwe Wegner, Dörte Becher, Katharina Riedel, Christoph Wilhelm Sensen et al. · 2014 · The ISME Journal
9. The genome sequence of Sea-Island cotton (Gossypium barbadense) provides insights into the allopolyploidization and development of superior spinnable fibres
   Daojun Yuan, Zhonghui Tang, Maojun Wang, Wenhui Gao, Lili Tu, Xin Jin, Ling‐Ling Chen, Yonghui He, Lin Zhang, Longfu Zhu et al. · 2015 · Scientific Reports
10. Phylogenomics provides robust support for a two-domains tree of life
    Williams, Tom A., Cox, Cymon J., Foster, Peter G., Szöllősi, Gergely J., Embley, T. Martin · 2019 · Nature Ecology & Evolution
11. The Genomic Diversification of the Whole Acinetobacter Genus: Origins, Mechanisms, and Consequences
    Marie Touchon, Jean Cury, Eun-Jeong Yoon, Lenka Křížová, Gustavo Cerqueira, Cheryl Isaac Murphy, Michael Feldgarden, Jennifer Russo Wortman, Dominique Clermont, Thierry Lambert et al. · 2014 · Genome Biology and Evolution
12. Local admixture of amplified and diversified secreted pathogenesis determinants shapes mosaic Toxoplasma gondii genomes
    Hernán Lorenzi, Asis Khan, Michael S. Behnke, Sivaranjani Namasivayam, Lakshmipuram S. Swapna, Michalis Hadjithomas, Svetlana A. Karamycheva, Deborah F. Pinney, Brian P. Brunk, James W. Ajioka et al. · 2016 · Nature Communications
13. Incongruence in the phylogenomics era
    Jacob Lucas Steenwyk, Yuanning Li, Xiaofan Zhou, Xing‐Xing Shen, Antonis Rokas · 2023 · Nature Reviews Genetics
14. Genomic analysis of 38 Legionella species identifies large and diverse effector repertoires
    David E Burstein, Francisco Amaro, Tal Zusman, Ziv Lifshitz, Ofir Cohen, Jack A. Gilbert, Tal Pupko, Howard A. Shuman, Gil Segal · 2016 · Nature Genetics
15. Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper
    Jaime Huerta‐Cepas, Sofia Kirke Forslund, Damian Szklarczyk, Lars Juhl Jensen, Christian von Mering, Peer Bork B · 2016 · bioRxiv (Cold Spring Harbor Laboratory)
16. An RxLR Effector from Phytophthora infestans Prevents Re-localisation of Two Plant NAC Transcription Factors from the Endoplasmic Reticulum to the Nucleus
    Hazel McLellan, Petra C. Boevink, Miles R. Armstrong, Leighton Pritchard, Sonia Gomez, Juan Morales, Stephen C. Whisson, Jim Beynon, Paul R. J. Birch · 2013 · PLoS Pathogens
17. Genomes to natural products PRediction Informatics for Secondary Metabolomes (PRISM)
    Michael A. Skinnider, Chris A. Dejong, Philip N. Rees, Chad W. Johnston, Haoxin Li, Andrew Webster, Morgan A. Wyatt, Nathan A. Magarvey · 2015 · Nucleic Acids Research
18. The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies
    J. Spatafora, M. C. Aime, I. Grigoriev, F. Martin, J. Stajich, M. Blackwell · 2017 · Microbiology spectrum
19. Systems analysis of RhoGEF and RhoGAP regulatory proteins reveals spatially organized RAC1 signalling from integrin adhesions
    Müller, Paul M., Rademacher, Juliane, Bagshaw, Richard D., Wortmann, Celina, Barth, Carolin, van Unen, Jakobus, Alp, Keziban M., Giudice, Girolamo, Eccles, Rebecca L., Heinrich, Louise E. et al. · 2020 · Nature Cell Biology
20. Diverse alkane hydroxylase genes in microorganisms and environments
    Yong Nie, Chang-Qiao Chi, Hui Fang, Jie‐Liang Liang, Shelian Lu, Guo-Li Lai, Yue‐Qin Tang, Xiao‐Lei Wu · 2014 · Scientific Reports
21. Wildfire-dependent changes in soil microbiome diversity and function
    Amelia R. Nelson, Adrienne B. Narrowe, Charles C. Rhoades, Timothy S. Fegel, Rebecca A. Daly, Holly K. Roth, Rosalie Chu, Kaela K. Amundson, Robert B. Young, Andrei Stecca Steindorff et al. · 2022 · Nature Microbiology
22. Prokaryotic viperins produce diverse antiviral molecules
    A. Bernheim, A. Millman, G. Ofir, Gilad Meitav, Carmel Avraham, H. Shomar, Masha M. Rosenberg, Nir Tal, S. Melamed, Gil Amitai et al. · 2020 · Nature
23. Diversity, evolution and medical applications of insect antimicrobial peptides
    Eleftherios E Mylonakis, Lars Podsiadłowski, Maged Muhammed, Andreas Vilcinskas · 2016 · Philosophical Transactions of the Royal Society B Biological Sciences
24. The Taxus genome provides insights into paclitaxel biosynthesis
    Xing-Yao Xiong, J. Gou, Q. Liao, Yan-Lin Li, Qian Zhou, Gui-Qi Bi, Chong Li, Ran Du, Xiao-Tong Wang, T. Sun et al. · 2021 · Nature Plants
25. A Global Coexpression Network Approach for Connecting Genes to Specialized Metabolic Pathways in Plants
    Jennifer H. Wisecaver, Alexander Borowsky, Vered Tzin, Georg Jander, Daniel J. Kliebenstein, Antonis Rokas · 2017 · The Plant Cell
26. Phylogenomics, Diversification Dynamics, and Comparative Transcriptomics across the Spider Tree of Life
    Rosa Fernández, Robert J. Kallal, Dimitar Dimitrov, Jesús A. Ballesteros, Miquel A. Arnedo, Gonzalo Giribet, Gustavo Hormiga · 2018 · Current Biology
27. Dynamic genome evolution and complex virocell metabolism of globally-distributed giant viruses
    Mohammad Moniruzzaman, Carolina A. Martínez-Gutiérrez, Alaina Weinheimer, Frank O. Aylward · 2020 · Nature Communications
28. A Basic Leucine Zipper Transcription Factor, AabZIP1, Connects Abscisic Acid Signaling with Artemisinin Biosynthesis in Artemisia annua
    Zhang, Fangyuan, Fu, Xueqing, Lv, Zongyou, Lu, Xu, Shen, Qian, Zhang, Ling, Zhu, Mengmeng, Wang, Guofeng, Sun, Xiaofen, Liao, Zhihua et al. · 2015 · Molecular Plant
29. Genome sequence of the necrotrophic fungus Penicillium digitatum, the main postharvest pathogen of citrus
    Marina Marcet‐Houben, Ana‐Rosa Ballester, Beatriz de la Fuente, Eleonora Harries, José F. Marcos, Luı́s González-Candelas, Toni Gabaldón · 2012 · BMC Genomics
30. Expanding the Marine Virosphere Using Metagenomics
    Carolina Megumi Mizuno, Francisco Rodríguez‐Valera, Nikole E. Kimes, Rohit Ghai · 2013 · PLoS Genetics
31. TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools
    Monat, Cécile, Padmarasu, Sudharsan, Lux, Thomas, Wicker, Thomas, Gundlach, Heidrun, Himmelbach, Axel, Ens, Jennifer, Li, Chengdao, Muehlbauer, Gary J., Schulman, Alan H. et al. · 2019 · Genome Biology
32. Coral microbiome manipulation elicits metabolic and genetic restructuring to mitigate heat stress and evade mortality
    Érika P. Santoro, Ricardo M. Borges, Josh L. Espinoza, Marcelo Freire, Camila S. M. A. Messias, Helena Villela, Leandro de Mattos Pereira, Caren L. S. Vilela, João G. Rosado, Pedro Cardoso et al. · 2021 · Science Advances
33. Doubling of the known set of RNA viruses by metagenomic analysis of an aquatic virome
    Yuri I. Wolf, Sukrit Silas, Yongjie Wang, Shuang Wu, Michael J. Bocek, Darius Kazlauskas, Mart Krupovìč, Andrew Z. Fire, Valerian V. Dolja, Eugene V. Koonin · 2020 · Nature Microbiology
34. Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes
    Laura Eme, Daniel Tamarit, Eva Caceres, Courtney W. Stairs, Valerie De Anda, Max Emil Schön, Kiley W. Seitz, Nina Dombrowski, William H. Lewis, Félix Homa et al. · 2023 · Nature
35. The Genome of the Anaerobic Fungus Orpinomyces sp. Strain C1A Reveals the Unique Evolutionary History of a Remarkable Plant Biomass Degrader
    Noha H. Youssef, Matthew Brian Couger, Christopher G. Struchtemeyer, Audra S. Liggenstoffer, Rolf Alexander Prade, Fares Z. Najar, Hasan K. Atiyeh, Mark R. Wilkins, Mostafa S. Elshahed · 2013 · Applied and Environmental Microbiology
36. ITSxpress: Software to rapidly trim internally transcribed spacer sequences with quality scores for marker gene analysis
    Adam R. Rivers, Kyle C. Weber, Terrence G. Gardner, Shuang Liu, Shalamar D. Armstrong · 2018 · F1000Research
37. Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems
    David E Burstein, Christine L Sun, Christopher T. Brown, Itai Sharon, Karthik Anantharaman, Alexander J. Probst, Brian C. Thomas, Jillian F. Banfield · 2016 · Nature Communications
38. Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes
    Robert A. Petit, Timothy D. Read · 2020 · mSystems
39. Reconstruction of ancient microbial genomes from the human gut
    Marsha C. Wibowo, Zhen Yang, Maxime Borry, Alexander Hübner, Kun D. Huang, Braden T. Tierney, Samuel E. Zimmerman, Francisco Martin Barajas-Olmos, Cecilia Contreras-Cubas, Humberto Garcia‐Ortíz et al. · 2021 · Nature
40. The nature of the last universal common ancestor and its impact on the early Earth system
    Edmund R. R. Moody, Sandra Álvarez-Carretero, Tara Mahendrarajah, James Clark, Holly C. Betts, Nina Dombrowski, Lénárd L. Szánthó, Richard A. Boyle, Stuart J. Daines, Xi Chen et al. · 2024 · Nature Ecology & Evolution
41. Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities
    Silvia G. Acinas, Pablo Sánchez, Guillem Salazar, Francisco M. Cornejo‐Castillo, Marta Sebastián, Ramiro Logares, Marta Royo‐Llonch, Lucas Paoli, Shinichi Sunagawa, Pascal Hingamp et al. · 2021 · Communications Biology
42. Protein interaction networks revealed by proteome coevolution
    Cong, Qian, Anishchenko, Ivan, Ovchinnikov, Sergey, Baker, David · 2019 · Science
43. Shark genomes provide insights into elasmobranch evolution and the origin of vertebrates
    Yuichiro Hara, Kazuaki Yamaguchi, Koh Onimaru, Mitsutaka Kadota, Mitsumasa Koyanagi, Sean D. Keeley, Kaori Tatsumi, Kaori Y. Tanaka, Fumio Motone, Yuka Kageyama et al. · 2018 · Nature Ecology & Evolution
44. RGAugury: a pipeline for genome-wide prediction of resistance gene analogs (RGAs) in plants
    Pingchuan Li, Xiande Quan, Gaofeng Jia, Jin Xiao, Sylvie Cloutier, Frank M. You · 2016 · BMC Genomics
45. A Bioinformatic Analysis of Integrative Mobile Genetic Elements Highlights Their Role in Bacterial Adaptation
    Matthew G. Durrant, Michelle M. Li, Benjamin A. Siranosian, Stephen B. Montgomery, Ami Siddharth Bhatt · 2019 · Cell Host & Microbe
46. Oatk: a de novo assembly tool for complex plant organelle genomes
    Chenxi Zhou, Max R. Brown, Mark L. Blaxter, Shane McCarthy, Richard Michael Durbin · 2025 · Genome biology
47. PADLOC: a web server for the identification of antiviral defence systems in microbial genomes
    Leighton J. Payne, Sean Meaden, Mario Rodríguez Mestre, Chris Palmer, Nicolás Toro, Peter C. Fineran, Simon A. Jackson · 2022 · Nucleic Acids Research
48. Metavir 2: new tools for viral metagenome comparison and assembled virome analysis
    Simon Roux, Jérémy Tournayre, Antoine Mahul, Didier Debroas, François Enault · 2014 · BMC Bioinformatics
49. Genome‐guided investigation of plant natural product biosynthesis
    Franziska Kellner, Jeongwoon Kim, Bernardo Clavijo, John P. Hamilton, Kevin L. Childs, Brieanne Vaillancourt, Jason Cepela, Marc Habermann, Burkhard Steuernagel, Leah Clissold et al. · 2015 · The Plant Journal
50. Viral pathogen discovery
    Charles Y. Chiu · 2013 · Current Opinion in Microbiology
51. The NLR-Annotator Tool Enables Annotation of the Intracellular Immune Receptor Repertoire
    Burkhard Steuernagel, Kamil Witek, Simon G. Krattinger, Ricardo Humberto Ramirez-Gonzalez, Henk‐jan Schoonbeek, Guotai Yu, Erin L. Baggs, Agnieszka I. Witek, Inderjit Singh Yadav, Ksenia V. Krasileva et al. · 2020 · PLANT PHYSIOLOGY
52. BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters
    Satria Ardhe Kautsar, Justin J. J. van der Hooft, Dick de Ridder, Marnix H. Medema · 2021 · GigaScience
53. Identification and classification of antiviral defence systems in bacteria and archaea with PADLOC reveals new system types
    Leighton J. Payne, Thomas C. Todeschini, Yi Wu, Benjamin J. Perry, Clive W. Ronson, Peter C. Fineran, Franklin L. Nóbrega, Simon A. Jackson · 2021 · Nucleic Acids Research
54. Cultivation and functional characterization of 79 planctomycetes uncovers their unique biology
    Sandra Wiegand, Mareike Jogler, Christian Boedeker, Daniela Pinto, John Vollmers, Elena Rivas‐Marín, Timo Kohn, Stijn H. Peeters, Anja Heuer, Patrick Rast et al. · 2019 · Nature Microbiology
55. PhaTYP: predicting the lifestyle for bacteriophages using BERT
    Jiayu Shang, Xubo Tang, Yanni Sun · 2022 · Briefings in Bioinformatics
56. Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome
    Alon Shaiber, Amy D. Willis, Tom O. Delmont, Simon Roux, Lin-Xing Chen, Abigail C. Schmid, Mahmoud Yousef, Andrea R. Watson, Karen Lolans, Özcan C. Esen et al. · 2020 · Genome biology
57. A Taxonomy of Bacterial Microcompartment Loci Constructed by a Novel Scoring Method
    Seth D. Axen, Onur Erbilgin, Cheryl A. Kerfeld · 2014 · PLoS Computational Biology
58. GLANDULAR TRICHOME ‐ SPECIFIC WRKY 1 promotes artemisinin biosynthesis in Artemisia annua
    Minghui Chen, Tingxiang Yan, Qian Shen, Xu Lu, Qifang Pan, Youran Huang, Yueli Tang, Xueqing Fu, Meng Liu, Weimin Jiang et al. · 2016 · New Phytologist
59. Genome-Wide Analysis of Alternative Splicing in Zea mays : Landscape and Genetic Regulation
    Shawn Thatcher, Wengang Zhou, April Leonard, Bingbing Wang, Mary K. Beatty, Gina Zastrow‐Hayes, Xiang Zhao, Andy Baumgarten, Bailin Li · 2014 · The Plant Cell
60. Siderophore-based microbial adaptations to iron scarcity across the eastern Pacific Ocean
    Rene Maurice Boiteau, Daniel R. Mende, Nicholas J. Hawco, Matthew R. McIlvin, Jessica N. Fitzsimmons, Mak A. Saito, Peter N. Sedwick, Edward F. DeLong, Daniel James Repeta · 2016 · Proceedings of the National Academy of Sciences
61. Discovery of novel carbohydrate-active enzymes through the rational exploration of the protein sequences space
    William Helbert, Laurent Poulet, Sophie Drouillard, Sophie Mathieu, Mélanie Loiodice, Marie Couturier, Vincent Lombard, Nicolas Terrapon, Jeremy Turchetto, Renaud Vincentelli et al. · 2019 · Proceedings of the National Academy of Sciences
62. Comparative Genome Analysis of Trichophyton rubrum and Related Dermatophytes Reveals Candidate Genes Involved in Infection
    Diego A. Martinez, Brian Gregory George Oliver, Yvonne Gräser, Jonathan M. Goldberg, Wenjun Li, Nilce Maria Martinez-Rossi, Michel Monod, Ekaterina Shelest, Richard Barton, Elizabeth Birch et al. · 2012 · mBio
63. Genomic Potential for Polysaccharide Deconstruction in Bacteria
    Renaud Berlemont, Adam Camillo Martiny · 2014 · Applied and Environmental Microbiology
64. Gene family innovation, conservation and loss on the animal stem lineage
    2018
65. Predicting the structure of large protein complexes using AlphaFold and Monte Carlo tree search
    2022
66. MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
    Todd J. Treangen, Sergey Koren, Daniel D Sommer, Bo Liu, Irina Astrovskaya, Brian Ondov, Aaron E. Darling, Adam M. Phillippy, Mihai Pop · 2013 · Genome biology
67. Overcoming the loss of blue sensitivity through opsin duplication in the largest animal group, beetles
    Camilla R. Sharkey, Mao Fujimoto, Nathan P. Lord, Seunggwan Shin, Duane D. McKenna, Anton Suvorov, Gavin J. Martin, Seth Bybee · 2017 · Scientific Reports
68. The SUPERFAMILY 2.0 database: a significant proteome update and a new webserver
    A. Pandurangan, Jonathan Stahlhacke, M. Oates, B. Smithers, J. Gough · 2018 · Nucleic Acids Res.
69. Phylogenetic background and habitat drive the genetic diversification of Escherichia coli
    M. Touchon, A. Perrin, J. M. D. de Sousa, B. Vangchhia, S. Burn, C. O'Brien, E. Denamur, D. Gordon, E. Rocha · 2020 · bioRxiv
70. Platon: identification and characterization of bacterial plasmid contigs in short-read draft assemblies exploiting protein sequence-based replicon distribution scores
    Oliver Schwengers, Patrick Barth, Linda Falgenhauer, Torsten Hain, Trinad Chakraborty, Alexander Goesmann · 2020 · Microbial Genomics
71. A review of computational tools for generating metagenome-assembled genomes from metagenomic sequencing data
    Chao Yang, Debajyoti Chowdhury, Zhenmiao Zhang, William K. Cheung, Aiping Lü, Zhaoxiang Bian, Lu Zhang · 2021 · Computational and Structural Biotechnology Journal
72. Key components of the eight classes of type IV secretion systems involved in bacterial conjugation or protein secretion
    Julien Guglielmini, Bertrand Néron, Sophie S. Abby, Maria Pilar Garcillán-Barcia, Fernando de la Cruz, Eduardo P. C. Rocha · 2014 · Nucleic Acids Research
73. Ecology and evolution of viruses infecting uncultivated SUP05 bacteria as revealed by single-cell- and meta-genomics
    Simon Roux, Alyse K. Hawley, Mónica Torres Beltrán, Melanie Scofield, Patrick Schwientek, Ramūnas Stepanauskas, Tanja Woyke, Steven Hallam, Matthew B. Sullivan · 2014 · eLife
74. Dissection of the Octoploid Strawberry Genome by Deep Sequencing of the Genomes of Fragaria Species
    Hideki Hirakawa, Kenta Shirasawa, Shunichi Kosugi, Kosuke Tashiro, Shun Nakayama, Manabu Yamada, Mitsuyo Kohara, A. Watanabe, Y. Kishida, Tsunakazu Fujishiro et al. · 2013 · DNA Research
75. Improved genomic island predictions with IslandPath-DIMOB
    Claire Bertelli, Fiona S. L. Brinkman · 2018 · Bioinformatics
76. Lipid exchanges drove the evolution of mutualism during plant terrestrialization
    Mélanie K. Rich, Nicolas Vigneron, Cyril Libourel, Jean Keller, Li Xue, Mohsen Hajheidari, Guru V. Radhakrishnan, Aurélie Le Ru, Seydina Issa Diop, Giacomo Potente et al. · 2021 · Science
77. Long-term excess nitrogen fertilizer increases sensitivity of soil microbial community to seasonal change revealed by ecological network and metagenome analyses
    Bingbing Li, Sarah S. Roley, David S. Duncan, Jiarong Guo, John F. Quensen, Han‐Qing Yu, James M. Tiedje · 2021 · Soil Biology and Biochemistry
78. Mediterranean grassland soil C–N compound turnover is dependent on rainfall and depth, and is mediated by genomically divergent microorganisms
    Spencer Diamond, Peter F Andeer, Zhou Li, Alexander Crits‐Christoph, David E Burstein, Karthik Anantharaman, Katherine R. Lane, Brian C. Thomas, Chongle Pan, Trent R. Northen et al. · 2019 · Nature Microbiology
79. The Adaptation of Temperate Bacteriophages to Their Host Genomes
    Louis‐Marie Bobay, Eduardo P. C. Rocha, Marie Touchon · 2012 · Molecular Biology and Evolution
80. Evolution of Conjugation and Type IV Secretion Systems
    Julien Guglielmini, Fernando de la Cruz, Eduardo P. C. Rocha · 2012 · Molecular Biology and Evolution
81. Towards the biogeography of prokaryotic genes
    Luis Pedro Coelho, Renato Alves, Álvaro Rodríguez del Río, Pernille Neve Myers, Carlos P. Cantalapiedra, Joaquín Giner‐Lamia, Thomas Schmidt, Daniel R. Mende, Askarbek N Orakov, Ivica Letunić et al. · 2021 · Nature
82. Robust variation in infant gut microbiome assembly across a spectrum of lifestyles
    Matthew R. Olm, Dylan Dahan, Matthew M. Carter, Bryan Douglas Merrill, Feiqiao Brian Yu, Sunit Jain, Xiandong Meng, Surya Mani Tripathi, Hannah Constance Wastyk, Norma F Neff et al. · 2022 · Science
83. Ultra-deep sequencing of Hadza hunter-gatherers recovers vanishing gut microbes
    Matthew M. Carter, Matthew R. Olm, Bryan Douglas Merrill, Dylan Dahan, Surya Mani Tripathi, Sean Paul Spencer, Feiqiao Brian Yu, Sunit Jain, Norma F Neff, Aashish R. Jha et al. · 2023 · Cell
84. Proposal of the reverse flow model for the origin of the eukaryotic cell based on comparative analyses of Asgard archaeal metabolism
    Spang, Anja, Stairs, Courtney W., Dombrowski, Nina, Eme, Laura, Lombard, Jonathan, Caceres, Eva F., Greening, Chris, Baker, Brett J., Ettema, Thijs J. G. · 2019 · Nature Microbiology
85. Genome‐based evolutionary history of Pseudomonas spp
    Cedar N. Hesse, Frederik Schulz, Carolee T. Bull, Brenda T. Shaffer, Qing Yan, Nicole Shapiro, Karl A. Hassan, Neha Jacob Varghese, Liam D. H. Elbourne, Ian T. Paulsen et al. · 2018 · Environmental Microbiology
86. Prediction of effector protein structures from fungal phytopathogens enables evolutionary analyses
    2023
87. Stout camphor tree genome fills gaps in understanding of flowering plant genome evolution
    Shu‐Miaw Chaw, Yu-Ching Liu, Yu‐Wei Wu, Han-Yu Wang, Chan‐Yi Ivy Lin, Chung‐Shien Wu, Huei‐Mien Ke, Lo‐Yu Chang, Chih-Yao Hsu, Hui-Ting Yang et al. · 2019 · Nature Plants
88. DEOGEN2: prediction and interactive visualization of single amino acid variant deleteriousness in human proteins
    Daniele Raimondi, Ibrahim Tanyalçin, Julien Ferté, Andrea M. Gazzo, Gabriele Orlando, Tom Lenaerts, Marianne J. Rooman, Wim Vranken · 2017 · Nucleic Acids Research
89. Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data
    Xing‐Xing Shen, Xiaofan Zhou, Jacek Kominek, Cletus P. Kurtzman, Chris Todd Hittinger, Antonis Rokas · 2016 · G3 Genes Genomes Genetics
90. Unraveling the functional dark matter through global metagenomics
    Georgios A. Pavlopoulos, Fotis A. Baltoumas, Sirui Liu, Oğuz Selvitopi, Antônio Pedro Camargo, Stephen Nayfach, Ariful Azad, Simon Roux, Lee Call, Natalia Ivanova et al. · 2023 · Nature
91. Distinct polysaccharide utilization profiles of human intestinal Prevotella copri isolates
    2019
92. A major lineage of non-tailed dsDNA viruses as unrecognized killers of marine bacteria
    Kathryn M. Kauffman, Fatima A. Hussain, Joy Yang, Philip Arevalo, Julia M. Brown, William K. Chang, David VanInsberghe, Joseph Elsherbini, Radhey Shyam Sharma, Michael Cutler et al. · 2018 · Nature
93. Diversification of the type IV filament superfamily into machines for adhesion, protein secretion, DNA uptake, and motility
    Rémi Denise, Sophie S. Abby, Eduardo P. C. Rocha · 2019 · PLoS Biology
94. Multiple origins of prokaryotic and eukaryotic single-stranded DNA viruses from bacterial and archaeal plasmids
    Darius Kazlauskas, Arvind Varsani, Eugene V. Koonin, Mart Krupovìč · 2019 · Nature Communications
95. A phylogenomic framework for charting the diversity and evolution of giant viruses
    Frank O. Aylward, Mohammad Moniruzzaman, Anh D. Ha, Eugene V. Koonin · 2021 · PLoS Biology
96. Phylogenomics of Lophotrochozoa with Consideration of Systematic Error
    Kevin M. Kocot, Torsten H. Struck, Julia Merkel, Damien S. Waits, Christiane Todt, Pamela M. Brannock, David Weese, Johanna Taylor Cannon, Leonid L. Moroz, Bernhard Lieb et al. · 2016 · Systematic Biology
97. The YNP metagenome project: environmental parameters responsible for microbial distribution in the Yellowstone geothermal ecosystem
    William P. Inskeep · 2013 · Frontiers in Microbiology
98. Untitled work
    2023 · 10.1101/2023.12.07.570727
99. Evolutionary History of Chemosensory-Related Gene Families across the Arthropoda
    Seong‐il Eyun, Ho Young Soh, Marijan Posavi, James B. Munro, Daniel Hughes, Shwetha Canchi Murali, Jiaxin Qu, Shannon Dugan, Sandra L. Lee, Hsu Chao et al. · 2017 · Molecular Biology and Evolution
100. The cytochrome P450 genesis locus: the origin and evolution of animal cytochrome P450s
     Nelson, David R., Goldstone, Jared V., Stegeman, John J. · 2013 · Philosophical Transactions of the Royal Society B: Biological Sciences