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Items: 14

1.

Discordances between molecular assays for rifampicin resistance in Mycobacterium tuberculosis: frequency, mechanisms and clinical impact.

Van Rie A, Whitfield MG, De Vos E, Scott L, Da Silva P, Hayes C, Heupink TH, Sirgel FA, Stevens W, Warren RM.

J Antimicrob Chemother. 2020 Feb 4. pii: dkz564. doi: 10.1093/jac/dkz564. [Epub ahead of print]

PMID:
32016320
2.

A landscape of genomic alterations at the root of a near-untreatable tuberculosis epidemic.

Klopper M, Heupink TH, Hill-Cawthorne G, Streicher EM, Dippenaar A, de Vos M, Abdallah AM, Limberis J, Merker M, Burns S, Niemann S, Dheda K, Posey J, Pain A, Warren RM.

BMC Med. 2020 Feb 4;18(1):24. doi: 10.1186/s12916-019-1487-2.

3.

Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues.

Meehan CJ, Goig GA, Kohl TA, Verboven L, Dippenaar A, Ezewudo M, Farhat MR, Guthrie JL, Laukens K, Miotto P, Ofori-Anyinam B, Dreyer V, Supply P, Suresh A, Utpatel C, van Soolingen D, Zhou Y, Ashton PM, Brites D, Cabibbe AM, de Jong BC, de Vos M, Menardo F, Gagneux S, Gao Q, Heupink TH, Liu Q, Loiseau C, Rigouts L, Rodwell TC, Tagliani E, Walker TM, Warren RM, Zhao Y, Zignol M, Schito M, Gardy J, Cirillo DM, Niemann S, Comas I, Van Rie A.

Nat Rev Microbiol. 2019 Sep;17(9):533-545. doi: 10.1038/s41579-019-0214-5. Review.

PMID:
31209399
4.

Ancient nuclear genomes enable repatriation of Indigenous human remains.

Wright JL, Wasef S, Heupink TH, Westaway MC, Rasmussen S, Pardoe C, Fourmile GG, Young M, Johnson T, Slade J, Kennedy R, Winch P, Pappin M Sr, Wales T, Bates WB, Hamilton S, Whyman N, van Holst Pellekaan S, McAllister PJ, Taçon PSC, Curnoe D, Li R, Millar C, Subramanian S, Willerslev E, Malaspinas AS, Sikora M, Lambert DM.

Sci Adv. 2018 Dec 19;4(12):eaau5064. doi: 10.1126/sciadv.aau5064. eCollection 2018 Dec.

5.

Complete mitochondrial genomes of living and extinct pigeons revise the timing of the columbiform radiation.

Soares AE, Novak BJ, Haile J, Heupink TH, Fjeldså J, Gilbert MT, Poinar H, Church GM, Shapiro B.

BMC Evol Biol. 2016 Oct 26;16(1):230.

6.

A genomic history of Aboriginal Australia.

Malaspinas AS, Westaway MC, Muller C, Sousa VC, Lao O, Alves I, Bergström A, Athanasiadis G, Cheng JY, Crawford JE, Heupink TH, Macholdt E, Peischl S, Rasmussen S, Schiffels S, Subramanian S, Wright JL, Albrechtsen A, Barbieri C, Dupanloup I, Eriksson A, Margaryan A, Moltke I, Pugach I, Korneliussen TS, Levkivskyi IP, Moreno-Mayar JV, Ni S, Racimo F, Sikora M, Xue Y, Aghakhanian FA, Brucato N, Brunak S, Campos PF, Clark W, Ellingvåg S, Fourmile G, Gerbault P, Injie D, Koki G, Leavesley M, Logan B, Lynch A, Matisoo-Smith EA, McAllister PJ, Mentzer AJ, Metspalu M, Migliano AB, Murgha L, Phipps ME, Pomat W, Reynolds D, Ricaut FX, Siba P, Thomas MG, Wales T, Wall CM, Oppenheimer SJ, Tyler-Smith C, Durbin R, Dortch J, Manica A, Schierup MH, Foley RA, Lahr MM, Bowern C, Wall JD, Mailund T, Stoneking M, Nielsen R, Sandhu MS, Excoffier L, Lambert DM, Willerslev E.

Nature. 2016 Oct 13;538(7624):207-214. doi: 10.1038/nature18299. Epub 2016 Sep 21.

PMID:
27654914
7.

Ancient mtDNA sequences from the First Australians revisited.

Heupink TH, Subramanian S, Wright JL, Endicott P, Westaway MC, Huynen L, Parson W, Millar CD, Willerslev E, Lambert DM.

Proc Natl Acad Sci U S A. 2016 Jun 21;113(25):6892-7. doi: 10.1073/pnas.1521066113. Epub 2016 Jun 6.

8.

The mysterious Spotted Green Pigeon and its relation to the Dodo and its kindred.

Heupink TH, van Grouw H, Lambert DM.

BMC Evol Biol. 2014 Jul 16;14:136. doi: 10.1186/1471-2148-14-136.

9.

Adélie penguins and temperature changes in Antarctica: a long-term view.

Millar CD, Subramanian S, Heupink TH, Swaminathan S, Baroni C, Lambert DM.

Integr Zool. 2012 Jun;7(2):113-20. doi: 10.1111/j.1749-4877.2012.00288.x. Review.

PMID:
22691195
10.

King penguin population on Macquarie Island recovers ancient DNA diversity after heavy exploitation in historic times.

Heupink TH, van den Hoff J, Lambert DM.

Biol Lett. 2012 Aug 23;8(4):586-9. doi: 10.1098/rsbl.2012.0053. Epub 2012 Feb 22.

11.

Ancient DNA suggests dwarf and 'giant' emu are conspecific.

Heupink TH, Huynen L, Lambert DM.

PLoS One. 2011 Apr 11;6(4):e18728. doi: 10.1371/journal.pone.0018728.

12.

Correlating Bayesian date estimates with climatic events and domestication using a bovine case study.

Ho SY, Larson G, Edwards CJ, Heupink TH, Lakin KE, Holland PW, Shapiro B.

Biol Lett. 2008 Aug 23;4(4):370-4. doi: 10.1098/rsbl.2008.0073.

13.

Mitochondrial DNA analysis shows a Near Eastern Neolithic origin for domestic cattle and no indication of domestication of European aurochs.

Edwards CJ, Bollongino R, Scheu A, Chamberlain A, Tresset A, Vigne JD, Baird JF, Larson G, Ho SY, Heupink TH, Shapiro B, Freeman AR, Thomas MG, Arbogast RM, Arndt B, Bartosiewicz L, Benecke N, Budja M, Chaix L, Choyke AM, Coqueugniot E, Döhle HJ, Göldner H, Hartz S, Helmer D, Herzig B, Hongo H, Mashkour M, Ozdogan M, Pucher E, Roth G, Schade-Lindig S, Schmölcke U, Schulting RJ, Stephan E, Uerpmann HP, Vörös I, Voytek B, Bradley DG, Burger J.

Proc Biol Sci. 2007 Jun 7;274(1616):1377-85.

14.

Bayesian estimation of sequence damage in ancient DNA.

Ho SY, Heupink TH, Rambaut A, Shapiro B.

Mol Biol Evol. 2007 Jun;24(6):1416-22. Epub 2007 Mar 29. Erratum in: Mol Biol Evol. 2007 Jul;24(7):1576.

PMID:
17395598

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