By Professor Torsten Thomas

Journal articles

Pintado J; Del Olmo G; Guinebert T; Ruiz P; Nappi J; Thomas T; Egan S; Masaló I; Cremades J, 2023, 'Manipulating the Ulva holobiont: Co-culturing Ulva ohnoi with Phaeobacter bacteria as a strategy for disease control in fish-macroalgae IMTA-RAS aquaculture', Journal of Applied Phycology, 35, pp. 2017 - 2029, http://dx.doi.org/10.1007/s10811-023-02986-1

Ozkan J; Majzoub ME; Coroneo M; Thomas T; Willcox M, 2023, 'Ocular microbiome changes in dry eye disease and meibomian gland dysfunction', Experimental Eye Research, 235, http://dx.doi.org/10.1016/j.exer.2023.109615

Garritano AN; Majzoub ME; Ribeiro B; Damasceno T; Modolon F; Messias C; Vilela C; Duarte G; Hill L; Peixoto R; Thomas T, 2023, 'Species-specific relationships between deep sea sponges and their symbiotic Nitrosopumilaceae', ISME Journal, 17, pp. 1517 - 1519, http://dx.doi.org/10.1038/s41396-023-01439-4

Nguyen VH; Wemheuer B; Song W; Bennett H; Webster N; Thomas T, 2023, 'Identification, classification, and functional characterization of novel sponge-associated acidimicrobiial species', Systematic and Applied Microbiology, 46, http://dx.doi.org/10.1016/j.syapm.2023.126426

Mills JG; Selway CA; Thomas T; Weyrich LS; Lowe AJ, 2023, 'Schoolyard Biodiversity Determines Short-Term Recovery of Disturbed Skin Microbiota in Children', Microbial Ecology, 86, pp. 658 - 669, http://dx.doi.org/10.1007/s00248-022-02052-2

Botté ES; Bennett H; Engelberts JP; Thomas T; Bell JJ; Webster NS; Luter HM, 2023, 'Future ocean conditions induce necrosis, microbial dysbiosis and nutrient cycling imbalance in the reef sponge Stylissa flabelliformis.', ISME Commun, 3, pp. 53, http://dx.doi.org/10.1038/s43705-023-00247-3

Strano F; Micaroni V; Thomas T; Woods L; Davy SK; Bell JJ, 2023, 'Marine heatwave conditions drive carryover effects in a temperate sponge microbiome and developmental performance', Proceedings of the Royal Society B: Biological Sciences, 290, http://dx.doi.org/10.1098/rspb.2022.2539

Rahman Z; Liu W; Stapleton L; Kenters N; Rasmika Dewi DAP; Gudes O; Ziochos H; Khan SJ; Power K; McLaws ML; Thomas T, 2023, 'Wastewater-based monitoring reveals geospatial-temporal trends for antibiotic-resistant pathogens in a large urban community', Environmental Pollution, 325, http://dx.doi.org/10.1016/j.envpol.2023.121403

Li J; Weinberger F; de Nys R; Thomas T; Egan S, 2023, 'A pathway to improve seaweed aquaculture through microbiota manipulation', Trends in Biotechnology, 41, pp. 545 - 556, http://dx.doi.org/10.1016/j.tibtech.2022.08.003

Nguyen VH; Wemheuer B; Song W; Bennett H; Palladino G; Burgsdorf I; Sizikov S; Steindler L; Webster NS; Thomas T, 2023, 'Functional characterization and taxonomic classification of novel gammaproteobacterial diversity in sponges', Systematic and Applied Microbiology, 46, http://dx.doi.org/10.1016/j.syapm.2023.126401

McKay I; van Dorst J; Katz T; Doumit M; Prentice B; Owens L; Belessis Y; Chuang S; Jaffe A; Thomas T; Coffey M; Ooi CY, 2023, 'Diet and the gut-lung axis in cystic fibrosis–direct & indirect links', Gut Microbes, 15, http://dx.doi.org/10.1080/19490976.2022.2156254

Hardoim CCP; Hardoim PR; Lôbo-Hajdu G; Custódio MR; Thomas T, 2023, 'The microbiome of the sponge Aplysina caissara in two sites with different levels of anthropogenic impact', FEMS Microbiology Letters, 370, http://dx.doi.org/10.1093/femsle/fnad064

Modolon F; Schultz J; Duarte G; Vilela CL; Thomas T; Peixoto RS, 2023, 'In situ devices can culture the microbial dark matter of corals', iScience, pp. 108374 - 108374, http://dx.doi.org/10.1016/j.isci.2023.108374

Zhang S; Song W; Nothias LF; Couvillion SP; Webster N; Thomas T, 2022, 'Comparative metabolomic analysis reveals shared and unique chemical interactions in sponge holobionts', Microbiome, 10, http://dx.doi.org/10.1186/s40168-021-01220-9

Liu R; Wei X; Song W; Wang L; Cao J; Wu J; Thomas T; Jin T; Wang Z; Wei W; Wei Y; Zhai H; Yao C; Shen Z; Du J; Fang J, 2022, 'Novel Chloroflexi genomes from the deepest ocean reveal metabolic strategies for the adaptation to deep-sea habitats', Microbiome, 10, http://dx.doi.org/10.1186/s40168-022-01263-6

Shaffer JP; Nothias LF; Thompson LR; Sanders JG; Salido RA; Couvillion SP; Brejnrod AD; Lejzerowicz F; Haiminen N; Huang S; Lutz HL; Zhu Q; Martino C; Morton JT; Karthikeyan S; Nothias-Esposito M; Dührkop K; Böcker S; Kim HW; Aksenov AA; Bittremieux W; Minich JJ; Marotz C; Bryant MKM; Sanders K; Schwartz T; Humphrey G; Vásquez-Baeza Y; Tripathi A; Parida L; Carrieri AP; Beck KL; Das P; González A; McDonald D; Ladau J; Karst SM; Albertsen M; Ackermann G; DeReus J; Thomas T; Petras D; Shade A; Stegen J; Song SJ; Metz TO; Swafford AD; Dorrestein PC; Jansson JK; Gilbert JA; Knight R; Angenant LT; Berry AM; Bittleston LS; Bowen JL; Chavarría M; Cowan DA; Distel D; Girguis PR; Huerta-Cepas J; Jensen PR; Jiang L; King GM; Lavrinienko A; MacRae-Crerar A; Makhalanyane TP; Mappes T; Marzinelli EM; Mayer G; McMahon KD; Metcalf JL; Miyake S; Mousseau TA; Murillo-Cruz C; Myrold D; Palenik B; Pinto-Tomás AA; Porazinska DL; Ramond JB; Rowher F; RoyChowdhury T; Sandin SA; Schmidt SK; Seedorf H; Shipway JR; Smith JE; Stewart FJ; Tait K; Thomas T; Tucker Y; U’Ren JM; Watts PC; Webster NS; Zaneveld JR; Zhang S, 2022, 'Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity', Nature Microbiology, 7, pp. 2128 - 2150, http://dx.doi.org/10.1038/s41564-022-01266-x

Garritano AN; Song W; Thomas T, 2022, 'Carbon fixation pathways across the bacterial and archaeal tree of life', PNAS Nexus, 1, http://dx.doi.org/10.1093/pnasnexus/pgac226

Peixoto RS; Voolstra CR; Sweet M; Duarte CM; Carvalho S; Villela H; Lunshof JE; Gram L; Woodhams DC; Walter J; Roik A; Hentschel U; Thurber RV; Daisley B; Ushijima B; Daffonchio D; Costa R; Keller-Costa T; Bowman JS; Rosado AS; Reid G; Mason CE; Walke JB; Thomas T; Berg G, 2022, 'Harnessing the microbiome to prevent global biodiversity loss', Nature Microbiology, 7, pp. 1726 - 1735, http://dx.doi.org/10.1038/s41564-022-01173-1

Spindola Vilela CL; Damasceno TL; Thomas T; Peixoto RS, 2022, 'Global qualitative and quantitative distribution of micropollutants in the deep sea', Environmental Pollution, 307, http://dx.doi.org/10.1016/j.envpol.2022.119414

Song W; Zhang S; Thomas T, 2022, 'MarkerMAG: Linking metagenome-assembled genomes (MAGs) with 16S rRNA marker genes using paired-end short reads', Bioinformatics, 38, pp. 3684 - 3688, http://dx.doi.org/10.1093/bioinformatics/btac398

Pettersen AK; Coleman MA; Latombe G; Gonzalez S; Williams NLR; Seymour JR; Campbell AH; Thomas T; Ferrari R; Stuart-Smith RD; Edgar GJ; Steinberg PD; Marzinelli E, 2022, 'Spatial compositional turnover varies with trophic level and body size in marine assemblages of micro- and macroorganisms', Global Ecology and Biogeography, 31, pp. 1556 - 1570, http://dx.doi.org/10.1111/geb.13530

Taylor JA; Díez-Vives C; Nielsen S; Wemheuer B; Thomas T, 2022, 'Communality in microbial stress response and differential metabolic interactions revealed by time-series analysis of sponge symbionts', Environmental Microbiology, 24, pp. 2299 - 2314, http://dx.doi.org/10.1111/1462-2920.15962

Taylor JA; Palladino G; Wemheuer B; Steinert G; Sipkema D; Williams TJ; Thomas T, 2022, 'Correction to: Phylogeny resolved, metabolism revealed: functional radiation within a widespread and divergent clade of sponge symbionts (The ISME Journal, (2021), 15, 2, (503-519), 10.1038/s41396-020-00791-z)', ISME Journal, 16, pp. 1200 - 1200, http://dx.doi.org/10.1038/s41396-021-01099-2

Field MA; Yadav S; Dudchenko O; Esvaran M; Rosen BD; Skvortsova K; Edwards RJ; Keilwagen J; Cochran BJ; Manandhar B; Bustamante S; Rasmussen JA; Melvin RG; Chernoff B; Omer A; Colaric Z; Chan EKF; Minoche AE; Smith TPL; Gilbert MTP; Bogdanovic O; Zammit RA; Thomas T; Aiden EL; Ballard JWO, 2022, 'The Australian dingo is an early offshoot of modern breed dogs', Science Advances, 8, http://dx.doi.org/10.1126/sciadv.abm5944

Qi S; Wang J; Wan L; Dai Z; da Silva Matos DM; Du D; Egan S; Bonser SP; Thomas T; Moles AT, 2022, 'Arbuscular Mycorrhizal Fungi Contribute to Phosphorous Uptake and Allocation Strategies of Solidago canadensis in a Phosphorous-Deficient Environment', Frontiers in Plant Science, 13, http://dx.doi.org/10.3389/fpls.2022.831654

Li J; Majzoub ME; Marzinelli EM; Dai Z; Thomas T; Egan S, 2022, 'Bacterial controlled mitigation of dysbiosis in a seaweed disease', ISME Journal, 16, pp. 378 - 387, http://dx.doi.org/10.1038/s41396-021-01070-1

Pratap K; Majzoub ME; Taki AC; Miranda Hernandez S; Magnusson M; Glasson CRK; de Nys R; Thomas T; Lopata AL; Kamath SD, 2022, 'The Algal Polysaccharide Ulvan and Carotenoid Astaxanthin Both Positively Modulate Gut Microbiota in Mice', Foods, 11, http://dx.doi.org/10.3390/foods11040565

Nappi J; Goncalves P; Khan T; Majzoub ME; Grobler AS; Marzinelli EM; Thomas T; Egan S, 2022, 'Differential priority effects impact taxonomy and functionality of host-associated microbiomes', Molecular Ecology, http://dx.doi.org/10.1111/mec.16336

Mills JG; Selway CA; Weyrich LS; Skelly C; Weinstein P; Thomas T; Young JM; Marczylo E; Yadav S; Yadav V; Lowe AJ; Breed MF, 2022, 'Rare genera differentiate urban green space soil bacterial communities in three cities across the world.', Access Microbiol, 4, pp. 000320, http://dx.doi.org/10.1099/acmi.0.000320

Vendl C; Nelson T; Ferrari B; Thomas T; Rogers T, 2021, 'Highly abundant core taxa in the blow within and across captive bottlenose dolphins provide evidence for a temporally stable airway microbiota', BMC Microbiology, 21, http://dx.doi.org/10.1186/s12866-020-02076-z

Bhandarkar NS; Mouatt P; Majzoub ME; Thomas T; Brown L; Panchal SK, 2021, 'Coffee pulp, a by-product of coffee production, modulates gut microbiota and improves metabolic syndrome in high-carbohydrate, high-fat diet-fed rats', Pathogens, 10, http://dx.doi.org/10.3390/pathogens10111369

du Preez R; Majzoub ME; Thomas T; Panchal SK; Brown L, 2021, 'Nannochloropsis oceanica as a microalgal food intervention in diet-induced metabolic syndrome in rats', Nutrients, 13, http://dx.doi.org/10.3390/nu13113991

Dewi DAPR; Thomas T; Mokhtar AMA; Nanyan NSM; Zulfigar SB; Salikin NH, 2021, 'Carbapenem resistance among marine bacteria—an emerging threat to the global health sector', Microorganisms, 9, http://dx.doi.org/10.3390/microorganisms9102147

Barno AR; Villela HDM; Aranda M; Thomas T; Peixoto RS, 2021, 'Correction referring to: Host under epigenetic control: A novel perspective on the interaction between microorganisms and corals (BioEssays, (2021), 43, 10, (2100068), 10.1002/bies.202100068)', BioEssays, 43, http://dx.doi.org/10.1002/bies.202170086

Barno AR; Villela HDM; Aranda M; Thomas T; Peixoto RS, 2021, 'Host under epigenetic control: A novel perspective on the interaction between microorganisms and corals', BioEssays, 43, http://dx.doi.org/10.1002/bies.202100068

Ferrari J; Goncalves P; Campbell AH; Sudatti DB; Wood GV; Thomas T; Pereira RC; Steinberg PD; Marzinelli EM, 2021, 'Molecular analysis of a fungal disease in the habitat-forming brown macroalga Phyllospora comosa (Fucales) along a latitudinal gradient', Journal of Phycology, 57, pp. 1504 - 1516, http://dx.doi.org/10.1111/jpy.13180

Majzoub ME; McElroy K; Maczka M; Schulz S; Thomas T; Egana S, 2021, 'Genomic Evolution of the Marine Bacterium Phaeobacter inhibens during Biofilm Growth', Applied and Environmental Microbiology, 87, pp. 1 - 14, http://dx.doi.org/10.1128/AEM.00769-21

Taylor JA; Díez-Vives C; Majzoub ME; Nielsen S; Thomas T, 2021, 'Stress response of the marine sponge Scopalina sp.. Can microbial community composition predict sponge disease?', FEMS Microbiology Ecology, 97, http://dx.doi.org/10.1093/femsec/fiab095

Phelps CM; McMahon K; Bissett A; Bernasconi R; Steinberg PD; Thomas T; Marzinelli EM; Huggett MJ, 2021, 'The surface bacterial community of an Australian kelp shows cross-continental variation and relative stability within regions', FEMS Microbiology Ecology, 97, http://dx.doi.org/10.1093/femsec/fiab089

Robbins SJ; Song W; Engelberts JP; Glasl B; Slaby BM; Boyd J; Marangon E; Botté ES; Laffy P; Thomas T; Webster NS, 2021, 'A genomic view of the microbiome of coral reef demosponges', ISME Journal, 15, pp. 1641 - 1654, http://dx.doi.org/10.1038/s41396-020-00876-9

Ozkan J; Majzoub ME; Coroneo M; Thomas T; Willcox M, 2021, 'Comparative analysis of ocular surface tissue microbiome in human, mouse, rabbit, and guinea pig', Experimental Eye Research, 207, http://dx.doi.org/10.1016/j.exer.2021.108609

Baum L; Nguyen MTHD; Jia Y; Biazik J; Thomas T, 2021, 'Characterization of a novel roseophage and the morphological and transcriptional response of the sponge symbiont Ruegeria AU67 to infection', Environmental Microbiology, 23, pp. 2532 - 2549, http://dx.doi.org/10.1111/1462-2920.15474

Nayfach S; Roux S; Seshadri R; Udwary D; Varghese N; Schulz F; Wu D; Paez-Espino D; Chen IM; Huntemann M; Palaniappan K; Ladau J; Mukherjee S; Reddy TBK; Nielsen T; Kirton E; Faria JP; Edirisinghe JN; Henry CS; Jungbluth SP; Chivian D; Dehal P; Wood-Charlson EM; Arkin AP; Tringe SG; Visel A; Abreu H; Acinas SG; Allen E; Allen MA; Alteio LV; Andersen G; Anesio AM; Attwood G; Avila-Magaña V; Badis Y; Bailey J; Baker B; Baldrian P; Barton HA; Beck DAC; Becraft ED; Beller HR; Beman JM; Bernier-Latmani R; Berry TD; Bertagnolli A; Bertilsson S; Bhatnagar JM; Bird JT; Blanchard JL; Blumer-Schuette SE; Bohannan B; Borton MA; Brady A; Brawley SH; Brodie J; Brown S; Brum JR; Brune A; Bryant DA; Buchan A; Buckley DH; Buongiorno J; Cadillo-Quiroz H; Caffrey SM; Campbell AN; Campbell B; Carr S; Carroll JL; Cary SC; Cates AM; Cattolico RA; Cavicchioli R; Chistoserdova L; Coleman ML; Constant P; Conway JM; Mac Cormack WP; Crowe S; Crump B; Currie C; Daly R; DeAngelis KM; Denef V; Denman SE; Desta A; Dionisi H; Dodsworth J; Dombrowski N; Donohue T; Dopson M; Driscoll T; Dunfield P; Dupont CL; Dynarski KA; Edgcomb V; Edwards EA; Elshahed MS; Figueroa I, 2021, 'A genomic catalog of Earth’s microbiomes', Nature Biotechnology, 39, pp. 499 - 509, http://dx.doi.org/10.1038/s41587-020-0718-6

Nayfach S; Roux S; Seshadri R; Udwary D; Varghese N; Schulz F; Wu D; Paez-Espino D; Chen IM; Huntemann M; Palaniappan K; Ladau J; Mukherjee S; Reddy TBK; Nielsen T; Kirton E; Faria JP; Edirisinghe JN; Henry CS; Jungbluth SP; Chivian D; Dehal P; Wood-Charlson EM; Arkin AP; Tringe SG; Visel A; Abreu H; Acinas SG; Allen E; Allen MA; Alteio LV; Andersen G; Anesio AM; Attwood G; Avila-Magaña V; Badis Y; Bailey J; Baker B; Baldrian P; Barton HA; Beck DAC; Becraft ED; Beller HR; Beman JM; Bernier-Latmani R; Berry TD; Bertagnolli A; Bertilsson S; Bhatnagar JM; Bird JT; Blanchard JL; Blumer-Schuette SE; Bohannan B; Borton MA; Brady A; Brawley SH; Brodie J; Brown S; Brum JR; Brune A; Bryant DA; Buchan A; Buckley DH; Buongiorno J; Cadillo-Quiroz H; Caffrey SM; Campbell AN; Campbell B; Carr S; Carroll JL; Cary SC; Cates AM; Cattolico RA; Cavicchioli R; Chistoserdova L; Coleman ML; Constant P; Conway JM; Mac Cormack WP; Crowe S; Crump B; Currie C; Daly R; DeAngelis KM; Denef V; Denman SE; Desta A; Dionisi H; Dodsworth J; Dombrowski N; Donohue T; Dopson M; Driscoll T; Dunfield P; Dupont CL; Dynarski KA; Edgcomb V; Edwards EA; Elshahed MS; Figueroa I, 2021, 'Author Correction: A genomic catalog of Earth’s microbiomes (Nature Biotechnology, (2021), 39, 4, (499-509), 10.1038/s41587-020-0718-6)', Nature Biotechnology, 39, pp. 521, http://dx.doi.org/10.1038/s41587-021-00898-4

Nayfach S; Roux S; Seshadri R; Udwary D; Varghese N; Schulz F; Wu D; Paez-Espino D; Chen IM; Huntemann M; Palaniappan K; Ladau J; Mukherjee S; Reddy TBK; Nielsen T; Kirton E; Faria JP; Edirisinghe JN; Henry CS; Jungbluth SP; Chivian D; Dehal P; Wood-Charlson EM; Arkin AP; Tringe SG; Visel A; Abreu H; Acinas SG; Allen E; Allen MA; Andersen G; Anesio AM; Attwood G; Avila-Magaña V; Badis Y; Bailey J; Baker B; Baldrian P; Barton HA; Beck DAC; Becraft ED; Beller HR; Beman JM; Bernier-Latmani R; Berry TD; Bertagnolli A; Bertilsson S; Bhatnagar JM; Bird JT; Blumer-Schuette SE; Bohannan B; Borton MA; Brady A; Brawley SH; Brodie J; Brown S; Brum JR; Brune A; Bryant DA; Buchan A; Buckley DH; Buongiorno J; Cadillo-Quiroz H; Caffrey SM; Campbell AN; Campbell B; Carr S; Carroll JL; Cary SC; Cates AM; Cattolico RA; Cavicchioli R; Chistoserdova L; Coleman ML; Constant P; Conway JM; Mac Cormack WP; Crowe S; Crump B; Currie C; Daly R; Denef V; Denman SE; Desta A; Dionisi H; Dodsworth J; Dombrowski N; Donohue T; Dopson M; Driscoll T; Dunfield P; Dupont CL; Dynarski KA; Edgcomb V; Edwards EA; Elshahed MS; Figueroa I; Flood B; Fortney N; Fortunato CS, 2021, 'Publisher Correction: A genomic catalog of Earth’s microbiomes (Nature Biotechnology, (2021), 39, 4, (499-509), 10.1038/s41587-020-0718-6)', Nature Biotechnology, 39, pp. 520, http://dx.doi.org/10.1038/s41587-020-00769-4

Song W; Wemheuer B; Steinberg PD; Marzinelli EM; Thomas T, 2021, 'Contribution of horizontal gene transfer to the functionality of microbial biofilm on a macroalgae', ISME Journal, 15, pp. 807 - 817, http://dx.doi.org/10.1038/s41396-020-00815-8

Peixoto RS; Sweet M; Villela HDM; Cardoso P; Thomas T; Voolstra CR; Høj L; Bourne DG, 2021, 'Coral Probiotics: Premise, Promise, Prospects', Annual Review of Animal Biosciences, 9, pp. 265 - 288, http://dx.doi.org/10.1146/annurev-animal-090120-115444

Nguyen M; Wemheuer B; Laffy PW; Webster NS; Thomas T, 2021, 'Taxonomic, functional and expression analysis of viral communities associated with marine sponges', PeerJ, 9, http://dx.doi.org/10.7717/peerj.10715

Chen Q; Wu WW; Qi SS; Cheng H; Li Q; Ran Q; Dai ZC; Du DL; Egan S; Thomas T, 2021, 'Arbuscular mycorrhizal fungi improve the growth and disease resistance of the invasive plant Wedelia trilobata', Journal of Applied Microbiology, 130, pp. 582 - 591, http://dx.doi.org/10.1111/jam.14415

Taylor JA; Palladino G; Wemheuer B; Steinert G; Sipkema D; Williams TJ; Thomas T, 2021, 'Phylogeny resolved, metabolism revealed: functional radiation within a widespread and divergent clade of sponge symbionts', ISME Journal, 15, pp. 503 - 519, http://dx.doi.org/10.1038/s41396-020-00791-z

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