Works in ISME Communications, 2023, Vol 3, Issue 1

Results: 130

Accounting for 16S rRNA copy number prediction uncertainty and its implications in bacterial diversity analyses.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00266-0

By:

Gao, Yingnan;
Wu, Martin

Publication type:

Article

Intra-population genomic diversity of the bloom-forming cyanobacterium, Aphanizomenon gracile, at low spatial scale.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00263-3

By:

Halary, Sébastien;
Duperron, Sébastien;
Kim Tiam, Sandra;
Duval, Charlotte;
Bernard, Cécile;
Marie, Benjamin

Publication type:

Article

Geology and land use shape nitrogen and sulfur cycling groundwater microbial communities in Pacific Island aquifers.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00261-5

By:

Watson, Sheree J;
Arisdakessian, Cédric;
Petelo, Maria;
Keliipuleole, Kekuʻiapōiula;
Tachera, Diamond K;
Okuhata, Brytne K;
Dulai, Henrietta;
Frank, Kiana L

Publication type:

Article

Fine scale sampling reveals early differentiation of rhizosphere microbiome from bulk soil in young Brachypodium plant roots.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00265-1

By:

Acharya, Shwetha M;
Yee, Mon Oo;
Diamond, Spencer;
Andeer, Peter F;
Baig, Nameera F;
Aladesanmi, Omolara T;
Northen, Trent R;
Banfield, Jillian F;
Chakraborty, Romy

Publication type:

Article

Challenges in supplying empirical proof for predictions derived from Species Distribution Models (SDMs): the case of an invasive cyanobacterium.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00264-2

By:

Meriggi, Carlotta;
Mehrshad, Maliheh;
Johnson, Richard K;
Laugen, Ane T;
Drakare, Stina

Publication type:

Article

Frequent pulse disturbances shape resistance and resilience in tropical marine microbial communities.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00260-6

By:

Wijaya, Winona;
Suhaimi, Zahirah;
Chua, Cherlyn Xin'Er;
Sunil, Rohan Shawn;
Kolundžija, Sandra;
Bin Rohaizat, Ahmad Muzakkir;
Md. Azmi, Norzarifah Binti;
Hazrin-Chong, Nur Hazlin;
Lauro, Federico M

Publication type:

Article

Reduced selection for antibiotic resistance in community context is maintained despite pressure by additional antibiotics.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00262-4

By:

Fang, Peiju;
Elena, Alan Xavier;
Kunath, Maxi Antonia;
Berendonk, Thomas U;
Klümper, Uli

Publication type:

Article

Correction: Suspension of oral hygiene practices highlights key bacterial shifts in saliva, tongue, and tooth plaque during gingival inflammation and resolution.

Published in:

2023

By:

Hall, Michael William;
Wellappuli, Nimali Chandhema;
Huang, Ruo Chen;
Wu, Kay;
Lam, David King;
Glogauer, Michael;
Beiko, Robert Gerald;
Senadheera, Dilani Braziunas

Publication type:

Correction Notice

Distribution and diversity of 'Tectomicrobia', a deep-branching uncultivated bacterial lineage harboring rich producers of bioactive metabolites.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00259-z

By:

Peters, Eike E;
Cahn, Jackson K B;
Lotti, Alessandro;
Gavriilidou, Asimenia;
Steffens, Ursula A E;
Loureiro, Catarina;
Schorn, Michelle A;
Cárdenas, Paco;
Vickneswaran, Nilani;
Crews, Phillip;
Sipkema, Detmer;
Piel, Jörn

Publication type:

Article

The Pathfinder plasmid toolkit for genetically engineering newly isolated bacteria enables the study of Drosophila-colonizing Orbaceae.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00255-3

By:

Elston, Katherine M;
Phillips, Laila E;
Leonard, Sean P;
Young, Eleanor;
Holley, Jo-anne C;
Ahsanullah, Tasneem;
McReynolds, Braydin;
Moran, Nancy A;
Barrick, Jeffrey E

Publication type:

Article

Metabolic handoffs between multiple symbionts may benefit the deep-sea bathymodioline mussels.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00254-4

By:

Zvi-Kedem, Tal;
Vintila, Simina;
Kleiner, Manuel;
Tchernov, Dan;
Rubin-Blum, Maxim

Publication type:

Article

Double emulsions as a high-throughput enrichment and isolation platform for slower-growing microbes.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00241-9

By:

McCully, Alexandra L;
Loop Yao, McKenna;
Brower, Kara K;
Fordyce, Polly M;
Spormann, Alfred M

Publication type:

Article

The association of prokaryotic antiviral systems and symbiotic phage communities in drinking water microbiomes.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00249-1

By:

Huang, Dan;
Yuan, Mengting Maggie;
Chen, Juhong;
Zheng, Xiaoxuan;
Wong, Dongsheng;
Alvarez, Pedro J J;
Yu, Pingfeng

Publication type:

Article

Dispersal changes soil bacterial interactions with fungal wood decomposition.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00253-5

By:

Wang, Cong;
Smith, Gabriel Reuben;
Gao, Cheng;
Peay, Kabir G

Publication type:

Article

Oxygen tolerance and detoxification mechanisms of highly enriched planktonic anaerobic ammonium-oxidizing (anammox) bacteria.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00251-7

By:

Okabe, Satoshi;
Ye, Shaoyu;
Lan, Xi;
Nukada, Keishi;
Zhang, Haozhe;
Kobayashi, Kanae;
Oshiki, Mamoru

Publication type:

Article

Assessing the biogeography of marine giant viruses in four oceanic transects.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00252-6

By:

Ha, Anh D;
Moniruzzaman, Mohammad;
Aylward, Frank O

Publication type:

Article

Metagenome-based metabolic modelling predicts unique microbial interactions in deep-sea hydrothermal plume microbiomes.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00242-8

By:

Kuppa Baskaran, Dinesh Kumar;
Umale, Shreyansh;
Zhou, Zhichao;
Raman, Karthik;
Anantharaman, Karthik

Publication type:

Article

Metabolic cooperation between conspecific genotypic groups contributes to bacterial fitness.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00250-8

By:

Lin, Lin;
Du, Rubing;
Wu, Qun;
Xu, Yan

Publication type:

Article

pWCP is a widely distributed and highly conserved Wolbachia plasmid in Culex pipiens and Culex quinquefasciatus mosquitoes worldwide.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00248-2

By:

Ghousein, Amani;
Tutagata, Jordan;
Schrieke, Hans;
Etienne, Manuel;
Chaumeau, Victor;
Boyer, Sebastien;
Pages, Nonito;
Roiz, David;
Eren, A Murat;
Cambray, Guillaume;
Reveillaud, Julie

Publication type:

Article

Phylogenetic and metabolic diversity of microbial communities performing anaerobic ammonium and methane oxidations under different nitrogen loadings.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00246-4

By:

Li, Jie;
Liu, Tao;
McIlroy, Simon J;
Tyson, Gene W;
Guo, Jianhua

Publication type:

Article

Optimizing ex vivo culture conditions to study human gut microbiome.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00245-5

By:

Tao, Xin;
Huang, Wenjin;
Pan, Lingyun;
Sheng, Lili;
Qin, Yuan;
Chen, Luo;
Yu, Linhuan;
Wu, Gaosong;
Wan, Jianbo;
Li, Houkai

Publication type:

Article

Functional annotation and importance of marine bacterial transporters of plankton exometabolites.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00244-6

By:

Schroer, William F;
Kepner, Hannah E;
Uchimiya, Mario;
Mejia, Catalina;
Rodriguez, Lidimarie Trujillo;
Reisch, Christopher R;
Moran, Mary Ann

Publication type:

Article

Mediterranean Sea heatwaves jeopardize greater amberjack's (Seriola dumerili) aquaculture productivity through impacts on the fish microbiota.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00243-7

By:

Sánchez-Cueto, Pablo;
Stavrakidis-Zachou, Orestis;
Clos-Garcia, Marc;
Bosch, Montse;
Papandroulakis, Nikos;
Lladó, Salvador

Publication type:

Article

Swine farm groundwater is a hidden hotspot for antibiotic-resistant pathogenic Acinetobacter.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00240-w

By:

Gao, Fang-Zhou;
He, Liang-Ying;
Chen, Xin;
Chen, Jing-Liang;
Yi, Xinzhu;
He, Lu-Xi;
Huang, Xin-Yi;
Chen, Zi-Yin;
Bai, Hong;
Zhang, Min;
Liu, You-Sheng;
Ying, Guang-Guo

Publication type:

Article

SituSeq: an offline protocol for rapid and remote Nanopore 16S rRNA amplicon sequence analysis.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00239-3

By:

Zorz, Jackie;
Li, Carmen;
Chakraborty, Anirban;
Gittins, Daniel A;
Surcon, Taylor;
Morrison, Natasha;
Bennett, Robbie;
MacDonald, Adam;
Hubert, Casey R J

Publication type:

Article

Correction: Ecological insights into soil health according to the genomic traits and environment-wide associations of bacteria in agricultural soils.

Published in:

2023

By:

Wilhelm, Roland C;
Amsili, Joseph P;
Kurtz, Kirsten S M;
van Es, Harold M;
Buckley, Daniel H

Publication type:

Correction Notice

The effect of wheat genotype on the microbiome is more evident in roots and varies through time.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00238-4

By:

Quiza, Liliana;
Tremblay, Julien;
Pagé, Antoine P;
Greer, Charles W;
Pozniak, Curtis J;
Li, Rong;
Haug, Brenda;
Hemmingsen, Sean M;
St-Arnaud, Marc;
Yergeau, Etienne

Publication type:

Article

Rapid differentiation of soil and root microbiomes in response to plant composition and biodiversity in the field.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00237-5

By:

Burrill, Haley M;
Wang, Guangzhou;
Bever, James D

Publication type:

Article

Metatranscriptomic response of the wheat holobiont to decreasing soil water content.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00235-7

By:

Pande, Pranav M;
Azarbad, Hamed;
Tremblay, Julien;
St-Arnaud, Marc;
Yergeau, Etienne

Publication type:

Article

Lipid stores reveal the state of the coral-algae symbiosis at the single-cell level.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00234-8

By:

Nielsen, Daniel Aagren;
Petrou, Katherina

Publication type:

Article

Viruses of a key coral symbiont exhibit temperature-driven productivity across a reefscape.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00227-7

By:

Howe-Kerr, Lauren I;
Grupstra, Carsten G B;
Rabbitt, Kristen M;
Conetta, Dennis;
Coy, Samantha R;
Klinges, J Grace;
Maher, Rebecca L;
McConnell, Kaitlin M;
Meiling, Sonora S;
Messyasz, Adriana;
Schmeltzer, Emily R;
Seabrook, Sarah;
Sims, Jordan A;
Veglia, Alex J;
Thurber, Andrew R;
Thurber, Rebecca L Vega;
Correa, Adrienne M S

Publication type:

Article

An agroecological structure model of compost—soil—plant interactions for sustainable organic farming.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00233-9

By:

Miyamoto, Hirokuni;
Shigeta, Katsumi;
Suda, Wataru;
Ichihashi, Yasunori;
Nihei, Naoto;
Matsuura, Makiko;
Tsuboi, Arisa;
Tominaga, Naoki;
Aono, Masahiko;
Sato, Muneo;
Taguchi, Shunya;
Nakaguma, Teruno;
Tsuji, Naoko;
Ishii, Chitose;
Matsushita, Teruo;
Shindo, Chie;
Ito, Toshiaki;
Kato, Tamotsu;
Kurotani, Atsushi;
Shima, Hideaki

Publication type:

Article

Nitrite accumulation and anammox bacterial niche partitioning in Arctic Mid-Ocean Ridge sediments.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00230-y

By:

Zhao, Rui;
Babbin, Andrew R;
Roerdink, Desiree L;
Thorseth, Ingunn H;
Jørgensen, Steffen L

Publication type:

Article

Xanthomonas infection and ozone stress distinctly influence the microbial community structure and interactions in the pepper phyllosphere.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00232-w

By:

Bhandari, Rishi;
Sanz-Saez, Alvaro;
Leisner, Courtney P;
Potnis, Neha

Publication type:

Article

Linking prokaryotic genome size variation to metabolic potential and environment.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00231-x

By:

Rodríguez-Gijón, Alejandro;
Buck, Moritz;
Andersson, Anders F;
Izabel-Shen, Dandan;
Nascimento, Francisco J A;
Garcia, Sarahi L

Publication type:

Article

Suspension of oral hygiene practices highlights key bacterial shifts in saliva, tongue, and tooth plaque during gingival inflammation and resolution.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00229-5

By:

Hall, Michael William;
Wellappuli, Nimali Chandhema;
Huang, Ruo Chen;
Wu, Kay;
Lam, David King;
Glogauer, Michael;
Beiko, Robert Gerald;
Senadheera, Dilani Braziunas

Publication type:

Article

Diversity and function of methyl-coenzyme M reductase-encoding archaea in Yellowstone hot springs revealed by metagenomics and mesocosm experiments.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00225-9

By:

Lynes, Mackenzie M;
Krukenberg, Viola;
Jay, Zackary J;
Kohtz, Anthony J;
Gobrogge, Christine A;
Spietz, Rachel L;
Hatzenpichler, Roland

Publication type:

Article

Community dynamics of microbial eukaryotes in intertidal mudflats in the hypertidal Bay of Fundy.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00226-8

By:

Kalu, Eke I;
Reyes-Prieto, Adrian;
Barbeau, Myriam A

Publication type:

Article

Importance of mobile genetic element immunity in numerically abundant Trichodesmium clades.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00214-y

By:

Webb, Eric A;
Held, Noelle A;
Zhao, Yiming;
Graham, Elaina D;
Conover, Asa E;
Semones, Jake;
Lee, Michael D;
Feng, Yuanyuan;
Fu, Fei-xue;
Saito, Mak A;
Hutchins, David A

Publication type:

Article

A meta-analysis of the stony coral tissue loss disease microbiome finds key bacteria in unaffected and lesion tissue in diseased colonies.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00220-0

By:

Rosales, Stephanie M;
Huebner, Lindsay K;
Evans, James S;
Apprill, Amy;
Baker, Andrew C;
Becker, Cynthia C;
Bellantuono, Anthony J;
Brandt, Marilyn E;
Clark, Abigail S;
del Campo, Javier;
Dennison, Caroline E;
Eaton, Katherine R;
Huntley, Naomi E;
Kellogg, Christina A;
Medina, Mónica;
Meyer, Julie L;
Muller, Erinn M;
Rodriguez-Lanetty, Mauricio;
Salerno, Jennifer L;
Schill, William B

Publication type:

Article

The terrestrial isopod symbiont 'Candidatus Hepatincola porcellionum' is a potential nutrient scavenger related to Holosporales symbionts of protists.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00224-w

By:

Dittmer, Jessica;
Bredon, Marius;
Moumen, Bouziane;
Raimond, Maryline;
Grève, Pierre;
Bouchon, Didier

Publication type:

Article

Simultaneous sulfate and nitrate reduction in coastal sediments.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00222-y

By:

Bourceau, O M;
Ferdelman, T;
Lavik, G;
Mussmann, M;
Kuypers, M M M;
Marchant, H K

Publication type:

Article

Beyond the limits of the unassigned protist microbiome: inferring large-scale spatio-temporal patterns of Syndiniales marine parasites.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-022-00203-7

By:

Rizos, Iris;
Debeljak, Pavla;
Finet, Thomas;
Klein, Dylan;
Ayata, Sakina-Dorothée;
Not, Fabrice;
Bittner, Lucie

Publication type:

Article

Characterization of a bloom-associated alphaproteobacterial lineage, 'Candidatus Phycosocius': insights into freshwater algal-bacterial interactions.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00228-6

By:

Tanabe, Yuuhiko;
Yamaguchi, Haruyo;
Yoshida, Masaki;
Kai, Atsushi;
Okazaki, Yusuke

Publication type:

Article

Metagenomic and machine learning-aided identification of biomarkers driving distinctive Cd accumulation features in the root-associated microbiome of two rice cultivars.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00213-z

By:

Cheng, Zhongyi;
Zheng, Qiang;
Shi, Jiachun;
He, Yan;
Yang, Xueling;
Huang, Xiaowei;
Wu, Laosheng;
Xu, Jianming

Publication type:

Article

Ultra-small bacteria and archaea exhibit genetic flexibility towards groundwater oxygen content, and adaptations for attached or planktonic lifestyles.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00223-x

By:

Gios, Emilie;
Mosley, Olivia E;
Weaver, Louise;
Close, Murray;
Daughney, Chris;
Handley, Kim M

Publication type:

Article

Impact of microbial genome completeness on metagenomic functional inference.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00221-z

By:

Eisenhofer, Raphael;
Odriozola, Iñaki;
Alberdi, Antton

Publication type:

Article

Selfish bacteria are active throughout the water column of the ocean.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00219-7

By:

Giljan, Greta;
Brown, Sarah;
Lloyd, C Chad;
Ghobrial, Sherif;
Amann, Rudolf;
Arnosti, Carol

Publication type:

Article

Genomics discovery of giant fungal viruses from subsurface oceanic crustal fluids.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-022-00210-8

By:

Bhattacharjee, Ananda S;
Schulz, Frederik;
Woyke, Tanja;
Orcutt, Beth N;
Martínez, Joaquín Martínez

Publication type:

Article

Using click chemistry to study microbial ecology and evolution.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-022-00205-5

By:

van Kasteren, Sander;
Rozen, Daniel E

Publication type:

Article