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Items: 1 to 20 of 89

1.

A draft genome sequence of the elusive giant squid, Architeuthis dux.

da Fonseca RR, Couto A, Machado AM, Brejova B, Albertin CB, Silva F, Gardner P, Baril T, Hayward A, Campos A, Ribeiro ÂM, Barrio-Hernandez I, Hoving HJ, Tafur-Jimenez R, Chu C, Frazão B, Petersen B, Peñaloza F, Musacchia F, Alexander GC, Osório H, Winkelmann I, Simakov O, Rasmussen S, Rahman MZ, Pisani D, Vinther J, Jarvis E, Zhang G, Strugnell JM, Castro LFC, Fedrigo O, Patricio M, Li Q, Rocha S, Antunes A, Wu Y, Ma B, Sanges R, Vinar T, Blagoev B, Sicheritz-Ponten T, Nielsen R, Gilbert MTP.

Gigascience. 2020 Jan 1;9(1). pii: giz152. doi: 10.1093/gigascience/giz152.

2.

Microbiota in foods from Inuit traditional hunting.

Hauptmann AL, Paulová P, Hansen LH, Sicheritz-Pontén T, Mulvad G, Nielsen DS.

PLoS One. 2020 Jan 14;15(1):e0227819. doi: 10.1371/journal.pone.0227819. eCollection 2020.

3.

Interspecific Gene Flow Shaped the Evolution of the Genus Canis.

Gopalakrishnan S, Sinding MS, Ramos-Madrigal J, Niemann J, Samaniego Castruita JA, Vieira FG, Carøe C, de Manuel Montero M, Kuderna L, Serres A, González-Basallote VM, Liu YH, Wang GD, Marques-Bonet T, Mirarab S, Fernandes C, Gaubert P, Koepfli KP, Budd J, Rueness EK, Sillero C, Heide-Jørgensen MP, Petersen B, Sicheritz-Ponten T, Bachmann L, Wiig Ø, Hansen AJ, Gilbert MTP.

Curr Biol. 2019 Dec 2;29(23):4152. doi: 10.1016/j.cub.2019.11.009. No abstract available.

4.

The microbial composition of dried fish prepared according to Greenlandic Inuit traditions and industrial counterparts.

Hauptmann AL, Paulová P, Castro-Mejía JL, Hansen LH, Sicheritz-Pontén T, Mulvad G, Nielsen DS.

Food Microbiol. 2020 Feb;85:103305. doi: 10.1016/j.fm.2019.103305. Epub 2019 Aug 13.

5.

High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach.

Mollerup S, Asplund M, Friis-Nielsen J, Kjartansdóttir KR, Fridholm H, Hansen TA, Herrera JAR, Barnes CJ, Jensen RH, Richter SR, Nielsen IB, Pietroni C, Alquezar-Planas DE, Rey-Iglesia A, Olsen PVS, Rajpert-De Meyts E, Groth-Pedersen L, von Buchwald C, Jensen DH, Gniadecki R, Høgdall E, Langhoff JL, Pete I, Vereczkey I, Baranyai Z, Dybkaer K, Johnsen HE, Steiniche T, Hokland P, Rosenberg J, Baandrup U, Sicheritz-Pontén T, Willerslev E, Brunak S, Lund O, Mourier T, Vinner L, Izarzugaza JMG, Nielsen LP, Hansen AJ.

J Infect Dis. 2019 Sep 13;220(8):1312-1324. doi: 10.1093/infdis/jiz318.

6.

Palaeogenomic insights into the origins of French grapevine diversity.

Ramos-Madrigal J, Runge AKW, Bouby L, Lacombe T, Samaniego Castruita JA, Adam-Blondon AF, Figueiral I, Hallavant C, Martínez-Zapater JM, Schaal C, Töpfer R, Petersen B, Sicheritz-Pontén T, This P, Bacilieri R, Gilbert MTP, Wales N.

Nat Plants. 2019 Jun;5(6):595-603. doi: 10.1038/s41477-019-0437-5. Epub 2019 Jun 10.

PMID:
31182840
7.

Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage.

Hendriksen RS, Munk P, Njage P, van Bunnik B, McNally L, Lukjancenko O, Röder T, Nieuwenhuijse D, Pedersen SK, Kjeldgaard J, Kaas RS, Clausen PTLC, Vogt JK, Leekitcharoenphon P, van de Schans MGM, Zuidema T, de Roda Husman AM, Rasmussen S, Petersen B; Global Sewage Surveillance project consortium, Amid C, Cochrane G, Sicheritz-Ponten T, Schmitt H, Alvarez JRM, Aidara-Kane A, Pamp SJ, Lund O, Hald T, Woolhouse M, Koopmans MP, Vigre H, Petersen TN, Aarestrup FM.

Nat Commun. 2019 Mar 8;10(1):1124. doi: 10.1038/s41467-019-08853-3.

8.
9.

Erratum to: Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing.

Mak SST, Gopalakrishnan S, Carøe C, Geng C, Liu S, Sinding MS, Kuderna LFK, Zhang W, Fu S, Vieira FG, Germonpré M, Bocherens H, Fedorov S, Petersen B, Sicheritz-Pontén T, Marques-Bonet T, Zhang G, Jiang H, Gilbert MTP.

Gigascience. 2018 Dec 1;7(12). doi: 10.1093/gigascience/giy151. No abstract available.

10.

A low-gluten diet induces changes in the intestinal microbiome of healthy Danish adults.

Hansen LBS, Roager HM, Søndertoft NB, Gøbel RJ, Kristensen M, Vallès-Colomer M, Vieira-Silva S, Ibrügger S, Lind MV, Mærkedahl RB, Bahl MI, Madsen ML, Havelund J, Falony G, Tetens I, Nielsen T, Allin KH, Frandsen HL, Hartmann B, Holst JJ, Sparholt MH, Holck J, Blennow A, Moll JM, Meyer AS, Hoppe C, Poulsen JH, Carvalho V, Sagnelli D, Dalgaard MD, Christensen AF, Lydolph MC, Ross AB, Villas-Bôas S, Brix S, Sicheritz-Pontén T, Buschard K, Linneberg A, Rumessen JJ, Ekstrøm CT, Ritz C, Kristiansen K, Nielsen HB, Vestergaard H, Færgeman NJ, Raes J, Frøkiær H, Hansen T, Lauritzen L, Gupta R, Licht TR, Pedersen O.

Nat Commun. 2018 Nov 13;9(1):4630. doi: 10.1038/s41467-018-07019-x.

11.

Population genomics of grey wolves and wolf-like canids in North America.

Sinding MS, Gopalakrishan S, Vieira FG, Samaniego Castruita JA, Raundrup K, Heide Jørgensen MP, Meldgaard M, Petersen B, Sicheritz-Ponten T, Mikkelsen JB, Marquard-Petersen U, Dietz R, Sonne C, Dalén L, Bachmann L, Wiig Ø, Hansen AJ, Gilbert MTP.

PLoS Genet. 2018 Nov 12;14(11):e1007745. doi: 10.1371/journal.pgen.1007745. eCollection 2018 Nov.

12.

Interspecific Gene Flow Shaped the Evolution of the Genus Canis.

Gopalakrishnan S, Sinding MS, Ramos-Madrigal J, Niemann J, Samaniego Castruita JA, Vieira FG, Carøe C, Montero MM, Kuderna L, Serres A, González-Basallote VM, Liu YH, Wang GD, Marques-Bonet T, Mirarab S, Fernandes C, Gaubert P, Koepfli KP, Budd J, Rueness EK, Sillero C, Heide-Jørgensen MP, Petersen B, Sicheritz-Ponten T, Bachmann L, Wiig Ø, Hansen AJ, Gilbert MTP.

Curr Biol. 2018 Nov 5;28(21):3441-3449.e5. doi: 10.1016/j.cub.2018.08.041. Epub 2018 Oct 18. Erratum in: Curr Biol. 2019 Dec 2;29(23):4152.

13.

Protective role of the vulture facial skin and gut microbiomes aid adaptation to scavenging.

Zepeda Mendoza ML, Roggenbuck M, Manzano Vargas K, Hansen LH, Brunak S, Gilbert MTP, Sicheritz-Pontén T.

Acta Vet Scand. 2018 Oct 11;60(1):61. doi: 10.1186/s13028-018-0415-3.

14.

Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios.

Matey-Hernandez ML; Danish Pan Genome Consortium, Brunak S, Izarzugaza JMG.

BMC Bioinformatics. 2018 Jun 25;19(1):239. doi: 10.1186/s12859-018-2239-6.

15.

Comparative genomics sheds light on niche differentiation and the evolutionary history of comammox Nitrospira.

Palomo A, Pedersen AG, Fowler SJ, Dechesne A, Sicheritz-Pontén T, Smets BF.

ISME J. 2018 Jun;12(7):1779-1793. doi: 10.1038/s41396-018-0083-3. Epub 2018 Mar 7.

16.

Hologenomic adaptations underlying the evolution of sanguivory in the common vampire bat.

Zepeda Mendoza ML, Xiong Z, Escalera-Zamudio M, Runge AK, Thézé J, Streicker D, Frank HK, Loza-Rubio E, Liu S, Ryder OA, Samaniego Castruita JA, Katzourakis A, Pacheco G, Taboada B, Löber U, Pybus OG, Li Y, Rojas-Anaya E, Bohmann K, Carmona Baez A, Arias CF, Liu S, Greenwood AD, Bertelsen MF, White NE, Bunce M, Zhang G, Sicheritz-Pontén T, Gilbert MPT.

Nat Ecol Evol. 2018 Apr;2(4):659-668. doi: 10.1038/s41559-018-0476-8. Epub 2018 Feb 19.

17.

Norgal: extraction and de novo assembly of mitochondrial DNA from whole-genome sequencing data.

Al-Nakeeb K, Petersen TN, Sicheritz-Pontén T.

BMC Bioinformatics. 2017 Nov 21;18(1):510. doi: 10.1186/s12859-017-1927-y.

18.

Whole grain-rich diet reduces body weight and systemic low-grade inflammation without inducing major changes of the gut microbiome: a randomised cross-over trial.

Roager HM, Vogt JK, Kristensen M, Hansen LBS, Ibrügger S, Mærkedahl RB, Bahl MI, Lind MV, Nielsen RL, Frøkiær H, Gøbel RJ, Landberg R, Ross AB, Brix S, Holck J, Meyer AS, Sparholt MH, Christensen AF, Carvalho V, Hartmann B, Holst JJ, Rumessen JJ, Linneberg A, Sicheritz-Pontén T, Dalgaard MD, Blennow A, Frandsen HL, Villas-Bôas S, Kristiansen K, Vestergaard H, Hansen T, Ekstrøm CT, Ritz C, Nielsen HB, Pedersen OB, Gupta R, Lauritzen L, Licht TR.

Gut. 2019 Jan;68(1):83-93. doi: 10.1136/gutjnl-2017-314786. Epub 2017 Nov 1.

19.

Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing.

Mak SST, Gopalakrishnan S, Carøe C, Geng C, Liu S, Sinding MS, Kuderna LFK, Zhang W, Fu S, Vieira FG, Germonpré M, Bocherens H, Fedorov S, Petersen B, Sicheritz-Pontén T, Marques-Bonet T, Zhang G, Jiang H, Gilbert MTP.

Gigascience. 2017 Aug 1;6(8):1-13. doi: 10.1093/gigascience/gix049. Erratum in: Gigascience. 2018 Dec 1;7(12):.

20.

Assembly and analysis of 100 full MHC haplotypes from the Danish population.

Jensen JM, Villesen P, Friborg RM; Danish Pan-Genome Consortium, Mailund T, Besenbacher S, Schierup MH.

Genome Res. 2017 Sep;27(9):1597-1607. doi: 10.1101/gr.218891.116. Epub 2017 Aug 3.

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