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Items: 1 to 20 of 41

1.

Towards standardisation of naming novel prokaryotic taxa in the age of high-throughput microbiology.

Hildebrand F, Pallen MJ, Bork P.

Gut. 2019 Jun 15. pii: gutjnl-2019-319045. doi: 10.1136/gutjnl-2019-319045. [Epub ahead of print] No abstract available.

2.

Ice-Age Climate Adaptations Trap the Alpine Marmot in a State of Low Genetic Diversity.

Gossmann TI, Shanmugasundram A, Börno S, Duvaux L, Lemaire C, Kuhl H, Klages S, Roberts LD, Schade S, Gostner JM, Hildebrand F, Vowinckel J, Bichet C, Mülleder M, Calvani E, Zelezniak A, Griffin JL, Bork P, Allaine D, Cohas A, Welch JJ, Timmermann B, Ralser M.

Curr Biol. 2019 May 20;29(10):1712-1720.e7. doi: 10.1016/j.cub.2019.04.020. Epub 2019 May 9.

3.

Antibiotics-induced monodominance of a novel gut bacterial order.

Hildebrand F, Moitinho-Silva L, Blasche S, Jahn MT, Gossmann TI, Huerta-Cepas J, Hercog R, Luetge M, Bahram M, Pryszlak A, Alves RJ, Waszak SM, Zhu A, Ye L, Costea PI, Aalvink S, Belzer C, Forslund SK, Sunagawa S, Hentschel U, Merten C, Patil KR, Benes V, Bork P.

Gut. 2019 Oct;68(10):1781-1790. doi: 10.1136/gutjnl-2018-317715. Epub 2019 Jan 18.

4.

A computational framework to integrate high-throughput '-omics' datasets for the identification of potential mechanistic links.

Pedersen HK, Forslund SK, Gudmundsdottir V, Petersen AØ, Hildebrand F, Hyötyläinen T, Nielsen T, Hansen T, Bork P, Ehrlich SD, Brunak S, Oresic M, Pedersen O, Nielsen HB.

Nat Protoc. 2018 Dec;13(12):2781-2800. doi: 10.1038/s41596-018-0064-z.

PMID:
30382244
5.

Population-level analysis of Blastocystis subtype prevalence and variation in the human gut microbiota.

Tito RY, Chaffron S, Caenepeel C, Lima-Mendez G, Wang J, Vieira-Silva S, Falony G, Hildebrand F, Darzi Y, Rymenans L, Verspecht C, Bork P, Vermeire S, Joossens M, Raes J.

Gut. 2019 Jul;68(7):1180-1189. doi: 10.1136/gutjnl-2018-316106. Epub 2018 Aug 31.

6.

Structure and function of the global topsoil microbiome.

Bahram M, Hildebrand F, Forslund SK, Anderson JL, Soudzilovskaia NA, Bodegom PM, Bengtsson-Palme J, Anslan S, Coelho LP, Harend H, Huerta-Cepas J, Medema MH, Maltz MR, Mundra S, Olsson PA, Pent M, Põlme S, Sunagawa S, Ryberg M, Tedersoo L, Bork P.

Nature. 2018 Aug;560(7717):233-237. doi: 10.1038/s41586-018-0386-6. Epub 2018 Aug 1.

PMID:
30069051
7.

Newly designed 16S rRNA metabarcoding primers amplify diverse and novel archaeal taxa from the environment.

Bahram M, Anslan S, Hildebrand F, Bork P, Tedersoo L.

Environ Microbiol Rep. 2019 Aug;11(4):487-494. doi: 10.1111/1758-2229.12684. Epub 2018 Sep 12.

8.

Toxic Cyanobacteria in Svalbard: Chemical Diversity of Microcystins Detected Using a Liquid Chromatography Mass Spectrometry Precursor Ion Screening Method.

Kleinteich J, Puddick J, Wood SA, Hildebrand F, Laughinghouse HD IV, Pearce DA, Dietrich DR, Wilmotte A.

Toxins (Basel). 2018 Apr 3;10(4). pii: E147. doi: 10.3390/toxins10040147.

9.

Host genetic variation strongly influences the microbiome structure and function in fungal fruiting-bodies.

Pent M, Hiltunen M, Põldmaa K, Furneaux B, Hildebrand F, Johannesson H, Ryberg M, Bahram M.

Environ Microbiol. 2018 May;20(5):1641-1650. doi: 10.1111/1462-2920.14069. Epub 2018 Mar 25.

PMID:
29441658
10.

Publisher Correction: Enterotypes in the landscape of gut microbial community composition.

Costea PI, Hildebrand F, Arumugam M, Bäckhed F, Blaser MJ, Bushman FD, de Vos WM, Ehrlich SD, Fraser CM, Hattori M, Huttenhower C, Jeffery IB, Knights D, Lewis JD, Ley RE, Ochman H, O'Toole PW, Quince C, Relman DA, Shanahan F, Sunagawa S, Wang J, Weinstock GM, Wu GD, Zeller G, Zhao L, Raes J, Knight R, Bork P.

Nat Microbiol. 2018 Mar;3(3):388. doi: 10.1038/s41564-018-0114-x.

PMID:
29440750
11.

Gut microbiota composition is associated with environmental landscape in honey bees.

Jones JC, Fruciano C, Hildebrand F, Al Toufalilia H, Balfour NJ, Bork P, Engel P, Ratnieks FL, Hughes WO.

Ecol Evol. 2017 Nov 30;8(1):441-451. doi: 10.1002/ece3.3597. eCollection 2018 Jan.

12.

Enterotypes in the landscape of gut microbial community composition.

Costea PI, Hildebrand F, Arumugam M, Bäckhed F, Blaser MJ, Bushman FD, de Vos WM, Ehrlich SD, Fraser CM, Hattori M, Huttenhower C, Jeffery IB, Knights D, Lewis JD, Ley RE, Ochman H, O'Toole PW, Quince C, Relman DA, Shanahan F, Sunagawa S, Wang J, Weinstock GM, Wu GD, Zeller G, Zhao L, Raes J, Knight R, Bork P.

Nat Microbiol. 2018 Jan;3(1):8-16. doi: 10.1038/s41564-017-0072-8. Epub 2017 Dec 18. Review. Erratum in: Nat Microbiol. 2018 Feb 13;:.

13.

Subspecies in the global human gut microbiome.

Costea PI, Coelho LP, Sunagawa S, Munch R, Huerta-Cepas J, Forslund K, Hildebrand F, Kushugulova A, Zeller G, Bork P.

Mol Syst Biol. 2017 Dec 14;13(12):960. doi: 10.15252/msb.20177589.

14.

Corrigendum: Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota.

Forslund K, Hildebrand F, Nielsen T, Falony G, Le Chatelier E, Sunagawa S, Prifti E, Vieira-Silva S, Gudmundsdottir V, Pedersen HK, Arumugam M, Kristiansen K, Voigt AY, Vestergaard H, Hercog R, Costea PI, Kultima JR, Li J, Jørgensen T, Levenez F, Dore J; MetaHIT consortium, Nielsen HB, Brunak S, Raes J, Hansen T, Wang J, Ehrlich SD, Bork P, Pedersen O.

Nature. 2017 May 3;545(7652):116. doi: 10.1038/nature22318. No abstract available.

PMID:
28470190
15.

RTK: efficient rarefaction analysis of large datasets.

Saary P, Forslund K, Bork P, Hildebrand F.

Bioinformatics. 2017 Aug 15;33(16):2594-2595. doi: 10.1093/bioinformatics/btx206.

16.

Species-function relationships shape ecological properties of the human gut microbiome.

Vieira-Silva S, Falony G, Darzi Y, Lima-Mendez G, Garcia Yunta R, Okuda S, Vandeputte D, Valles-Colomer M, Hildebrand F, Chaffron S, Raes J.

Nat Microbiol. 2016 Jun 13;1(8):16088. doi: 10.1038/nmicrobiol.2016.88.

PMID:
27573110
17.

Human gut microbes impact host serum metabolome and insulin sensitivity.

Pedersen HK, Gudmundsdottir V, Nielsen HB, Hyotylainen T, Nielsen T, Jensen BA, Forslund K, Hildebrand F, Prifti E, Falony G, Le Chatelier E, Levenez F, Doré J, Mattila I, Plichta DR, Pöhö P, Hellgren LI, Arumugam M, Sunagawa S, Vieira-Silva S, Jørgensen T, Holm JB, Trošt K; MetaHIT Consortium, Kristiansen K, Brix S, Raes J, Wang J, Hansen T, Bork P, Brunak S, Oresic M, Ehrlich SD, Pedersen O.

Nature. 2016 Jul 21;535(7612):376-81. Epub 2016 Jul 13.

PMID:
27409811
18.

Durable coexistence of donor and recipient strains after fecal microbiota transplantation.

Li SS, Zhu A, Benes V, Costea PI, Hercog R, Hildebrand F, Huerta-Cepas J, Nieuwdorp M, Salojärvi J, Voigt AY, Zeller G, Sunagawa S, de Vos WM, Bork P.

Science. 2016 Apr 29;352(6285):586-9. doi: 10.1126/science.aad8852.

19.

Gut Microbiota Linked to Sexual Preference and HIV Infection.

Noguera-Julian M, Rocafort M, Guillén Y, Rivera J, Casadellà M, Nowak P, Hildebrand F, Zeller G, Parera M, Bellido R, Rodríguez C, Carrillo J, Mothe B, Coll J, Bravo I, Estany C, Herrero C, Saz J, Sirera G, Torrela A, Navarro J, Crespo M, Brander C, Negredo E, Blanco J, Guarner F, Calle ML, Bork P, Sönnerborg A, Clotet B, Paredes R.

EBioMedicine. 2016 Jan 28;5:135-46. doi: 10.1016/j.ebiom.2016.01.032. eCollection 2016 Mar.

20.

Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota.

Forslund K, Hildebrand F, Nielsen T, Falony G, Le Chatelier E, Sunagawa S, Prifti E, Vieira-Silva S, Gudmundsdottir V, Pedersen HK, Arumugam M, Kristiansen K, Voigt AY, Vestergaard H, Hercog R, Costea PI, Kultima JR, Li J, Jørgensen T, Levenez F, Dore J; MetaHIT consortium, Nielsen HB, Brunak S, Raes J, Hansen T, Wang J, Ehrlich SD, Bork P, Pedersen O.

Nature. 2015 Dec 10;528(7581):262-266. doi: 10.1038/nature15766. Epub 2015 Dec 2. Erratum in: Nature. 2017 May 3;545(7652):116.

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