Simon Roux - Publications, H-index & Citations

Simon Roux

Lawrence Berkeley National Laboratory

77H指数

389论文数

3.0W被引数

收录论文 111

发表时间

The biogeography of giant viruses and interactions with Eukaryotes across European lakes 巨型病毒的生物地理学及其与欧洲湖泊中真核生物的相互作用

Nature Communications

IF15.7

2026-09-23

OAAI

Olesya V. Kolmakova; Frederik Schulz; Yumary M. Vasquez; Jeremy A. Fonvielle; Lucas P. P. Braga; Simon Roux; Tanja Woyke; Andrew J. Tanentzap

Mobile genetic elements shape microbial diversity and functions in thawing permafrost soils 移动遗传元件塑造冻融永久冻土微生物的多样性和功能

Nature Microbiology

IF19.4

2026-06-29

OAAI

Jiarong Guo; Samuel T. N. Aroney; Guillermo Domínguez-Huerta; Derek Smith; Dean Vik; Carlos Owusu-Ansah; Akbar Adjie Pratama; Sergei Solonenko; Funing Tian; Cristina Howard-Varona; Zhi-Ping Zhong; Aminata Fofana; Garrett J. Smith; Suzanne B. Hodgkins; Dylan Cronin; Ben J. Woodcroft; Gene W. Tyson; Virginia I. Rich; Matthew B. Sullivan; Simon Roux; Sarah C. Bagby

Single nucleotide variants drive evolutionary phage-host arms race in anaerobic carbon dioxide-converting microbiome 单核苷酸变异驱动厌氧二氧化碳转化微生物组中的噬菌体-宿主进化军备竞赛

Nature Communications

IF15.7

2026-05-28

OAAI

G. Ghiotto; G. Zampieri; E. Orellana; A. Chatzis; P. G. Kougias; A. Camargo; S. Roux; S. Campanaro; N. C. Kyrpides; L. Treu

Changes to virus taxonomy, the international code of virus classification and nomenclature, and the ICTV statutes ratified by the International Committee on Taxonomy of Viruses (2025)国际病毒分类委员会（2025）批准的病毒分类学、国际病毒分类与命名法规以及ICTV章程的变更。

Archives of Virology

IF2.5

2025-12-18

PREAI

Simmonds, Peter; Adriaenssens, Evelien M.; Lefkowitz, Elliot J.; Oksanen, Hanna M.; Zerbini, Francisco Murilo; Alfenas-Zerbini, Poliane; Aylward, Frank O.; Dempsey, Donald M.; Freitas-Astua, Juliana; Hendrickson, R. Curtis; Hughes, Holly R.; Krupovic, Mart; Kuhn, Jens H.; Lobocka, Malgorzata; Mayne, Richard; Mushegian, Arcady R.; Penzes, Judit J.; Reyes Munoz, Alejandro; Robertson, David L.; Roux, Simon; Rubino, Luisa; Sabanadzovic, Sead; Smith, Donald B.; Suzuki, Nobuhiro; Turner, Dann; Van Doorslaer, Koenraad; Varsani, Arvind

Population ecology and biogeochemical implications of ssDNA and dsDNA viruses along a permafrost thaw gradient 永久冻土融化梯度上ssDNA和dsDNA病毒的种群生态学与生物地球化学意义

Nature Communications

IF15.7

2025-12-11

OAAI

Gareth Trubl; Simon Roux; Mikayla A. Borton; Arvind Varsani; Yueh-Fen Li; Christine L. Sun; Ho Bin Jang; Ben J. Woodcroft; Gene W. Tyson; Kelly C. Wrighton; Scott R. Saleska; Emiley A. Eloe-Fadrosh; Matthew B. Sullivan; Virginia I. Rich

Comparison of short-read and long-read metagenome assemblies in a natural soil community highlights systematic bias in recovery of high-diversity populations 短读长读宏基因组组装在自然土壤群落中的比较，突显了高多样性群体恢复中的系统性偏差

NAR GENOMICS AND BIOINFORMATICS

IF2.8

2025-12-01

OAAI

Berg, Maureen; Reiter, Taylor; Emerson, Joanne; Brown, C. Titus; Roux, Simon

STREAMS guidelines: standards for technical reporting in environmental and host-associated microbiome studies STREAMS指南：环境与宿主相关微生物组研究技术报告的标准

Nature Microbiology

IF19.4

2025-12-01

PREAI

Julia M. Kelliher; Chloe Mirzayi; Sarah R. Bordenstein; Aaron Oliver; Christina A. Kellogg; Eneida L. Hatcher; Maureen Berg; Petr Baldrian; Mashael Aljumaah; Cassandra Maria Luz Miller; Christopher Mungall; Vlastimil Novak; Alexis Palucki; Ethan Smith; Nazifa Tabassum; Gregory Bonito; J. Rodney Brister; Patrick S. G. Chain; Mingfei Chen; Samuel Degregori; Jose Pablo Dundore-Arias; Joanne B. Emerson; Vanessa Moreira C. Fernandes; Roberto Flores; Antonio Gonzalez; Zoe A. Hansen; Scott A. Jackson; Ahmed M. Moustafa; Trent R. Northen; Nonia Pariente; Jennifer Pett-Ridge; Sydne Record; Linta Reji; Anna-Louise Reysenbach; Virginia I. Rich; Lorna Richardson; Simon Roux; Lynn M. Schriml; Reed S. Shabman; Maria A. Sierra; Matthew B. Sullivan; Punithavathi Sundaramurthy; Katherine M. Thibault; Luke R. Thompson; Scott Tighe; Ethell Vereen; Emiley A. Eloe-Fadrosh

VirJenDB: a FAIR (meta)data and bioinformatics platform for all viruses VirJenDB：一个适用于所有病毒的FAIR（元）数据与生物信息学平台

NUCLEIC ACIDS RESEARCH

IF13.1

2025-12-01

OAAI

Saghaei, Shahram; Siemers, Malte; Ossetek, Kilian L.; Richter, Stephan; Edwards, Robert a; Roux, Simon; Zielezinski, Andrzej; Dutilh, Bas E.; Marz, Manja; Cassman, Noriko A.

A call for caution in the biological interpretation of viral auxiliary metabolic genes 对病毒辅助代谢基因生物学解释的谨慎呼吁

Nature Microbiology

IF19.4

2025-08-27

OAAI

Cody Martin; Joanne B. Emerson; Simon Roux; Karthik Anantharaman

Viromics approaches for the study of viral diversity and ecology in microbiomes 微生物组中病毒多样性和生态学研究的病毒学方法

Nature Reviews Genetics

IF52

2025-07-21

PREAI

Simon Roux; Clement Coclet

Quantifying the impact of workshops promoting microbiome data standards and data stewardship

SCIENTIFIC REPORTS

IF3.9

2025-03-22

OAAI

Kelliher, Julia M.; Rodriguez, Francisca E.; Johnson, Leah Y. D.; Roux, Simon; Smith, Montana; Clum, Alicia; Lynch, Wendi; Bias, Candace Hope; Finks, Sarai S.; Keenum, Ishi; Kiledal, E. Anders; Lin, Heng-An; Longley, Reid; Mcdonald, Ryan; Pitot, Thomas M.; Rodriguez-Ramos, Josue; Shen, Jiaxian; Sprockett, Daniel D.; Swift, Joel; Yadav, Archana; Eloe-Fadrosh, Emiley A.

Viral niche-partitioning: comparative genomics of giant viruses across environmental gradients in a high Arctic freshwater-saltwater lake 病毒生态位划分: 北极高淡水-咸水湖中跨环境梯度的巨型病毒的比较基因组学

ISME COMMUNICATIONS

IF6.1

2024-12-08

OAAI

Pitot, Thomas M.; Girard, Catherine; Rapp, Josephine Z.; Somerville, Vincent; Culley, Alexander, I; Vincent, Warwick F.; Moineau, Sylvain; Roux, Simon

Tapping the treasure trove of atypical phages

CURRENT OPINION IN MICROBIOLOGY

IF7.5

2024-12-01

OAAI

Roux, Simon; Mutalik, Vivek K.

MVP: a modular viromics pipeline to identify, filter, cluster, annotate, and bin viruses from metagenomes

MSYSTEMS

IF4.6

2024-10-22

OAAI

Coclet, Clement; Camargo, Antonio Pedro; Roux, Simon

Distinct and rich assemblages of giant viruses in Arctic and Antarctic lakes 北极和南极湖泊中独特而丰富的巨型病毒组合

ISME COMMUNICATIONS

IF6.1

2024-03-29

OAAI

Pitot, Thomas M.; Rapp, Josephine Z.; Schulz, Frederik; Girard, Catherine; Roux, Simon; Culley, Alexander, I

IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata IMG/PR: 来自基因组和元基因组的质粒数据库，具有丰富的注释和元数据

NUCLEIC ACIDS RESEARCH

IF13.1

2023-11-01

OAAI

Camargo, Antonio Pedro; Call, Lee; Roux, Simon; Nayfach, Stephen; Huntemann, Marcel; Palaniappan, Krishnaveni; Ratner, Anna; Chu, Ken; Mukherjeep, Supratim; Reddy, T. B. K.; Chen, I-Min A.; Ivanova, Natalia N.; Eloe-Fadrosh, Emiley A.; Woyke, Tanja; Baltrus, David A.; Castaneda-Barba, Salvador; de la Cruz, Fernando; Funnell, Barbara E.; Hall, James P. J.; Mukhopadhyay, Aindrila; Rocha, Eduardo P. C.; Stalder, Thibault; Top, Eva; Kyrpides, Nikos C.

Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem 高海拔流域土壤生态系统中的融雪和宿主动力学驱动了病毒多样性和活动

MICROBIOME

IF12.7

2023-10-27

OAAI

Coclet, Clement; Sorensen, Patrick O.; Karaoz, Ulas; Wang, Shi; Brodie, Eoin L.; Eloe-Fadrosh, Emiley A.; Roux, Simon

Identification of mobile genetic elements with geNomad 用geNomad鉴定移动遗传元件

NATURE BIOTECHNOLOGY

IF41.7

2023-09-21

116

OAAI