TheHittingerLab

TheHittingerLab

The Hittinger Lab

RESEARCH PUBLICATIONS

(&equal contributions, @corresponding author)

34. Bellora N, Moliné M, David-Palma M, Coelho MA, Hittinger CT, Sampaio JP, Gonçalves P, Libkind D. 2016. Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma. BMC Genomics 17: 901.
  BMC Genomics PubMed    
33. Kuang MC, Hutchins PD, Russell JD, Coon JJ, Hittinger CT. 2016. Ongoing resolution of duplicate gene functions shapes the diversification of a metabolic network. Elife. 2016 Sep 30; 5. e19027.
  Elife PubMed    
32. Shen XX, Zhou X, Kominek J, Kurtzman CP@, Hittinger CT@, Rokas A@. Reconstructing the backbone of the Saccharomycotina yeast phylogeny using genome-scale data. G3: 070235.
  G3 PubMed    
31. Zhou X, Peris D, Kominek J, Kurtzman CP, Hittinger CT, Rokas A. 2015. in silico Whole Genome Sequencer & Analyzer (iWGS): a computational pipeline to guide the design and analysis of de novo genome sequencing studies. G3: 028134.
  G3 PubMed    
30. Sato TK, Tremaine M, Parreiras LS, Hebert AS, Myers KS, Higbee AJ, Sardi M, McIlwain SJ, Ong IM, Breuer RJ, Narasimhan RA, McGee MA, Dickinson Q, La Reau A, Xie D, Tian M, Piotrowski JS, Reed JL, Zhang Y, Coon JJ, Hittinger CT, Gasch AP, Landick R. 2016. Directed evolution reveals unexected epistatic interactions that alter metabolic regulation and enable anaerobic xylose use by Saccharomyces cerevisiae. PLoS Genet 12: e1006372.
  PLOS Genetics PubMed    
29. Riley R, Haridas S, Wolfe KH, Lopes MR, Hittinger CT, Göker M, Salamov AA, Wisecaver JH, Long TM, Calvey CH, Aerts AL, Barry KW, Choi C, Clum A, Coughlan AY, Deshpande S, Douglass AP, Hanson SJ, Klenk HP, LaButti KM, Lapidus A, Lindquist EA, Lipzen AM, MeierKolthoff JP, Ohm RA, Otillar RP, Pangilinan JL, Peng Y, Rokas A, Rosa CA, Scheuner C, Sibirny AA, Slot JC, Stielow JB, Sun H, Kurtzman CP, Blackwell M, Grigoriev IV, Jeffries TW. Comparative genomics of biotechnologically important yeasts. Proc Natl Acad Sci USA epub: 201603941.
  PNAS PubMed    
28. Peris D, Langdon Q, Moriarty RV, Sylvester K, Bontrager M, Charron G, Leducq JB, Landry CR, Libkind D, Hittinger CT@. Complex ancestries of lager-brewing hybrids were shaped by standing variation in the wild yeast Saccharomyces eubayanus. PLoS Genet. 2016 Jul 6; 12(7): e1006155.
  PLOS Genetics PubMed    
27. Wisecaver JH, Alexander WG, King SB, Hittinger CT, Rokas A. 2016. Dynamic evolution of nitric oxide detoxifying flavohemoglobins, a family of single-protein metabolic modules in bacteria and eukaryotes. Mol Biol Evol. 2016 Aug; 33(8):1979-87.
  MBE PubMed    
26. Lopes MR&, Morais CG& , Kominek J, Cadete RM, Soares MA, Uetanabaro APT, Fonseca C, Lachance MA, Hittinger CT, Rosa CA. Genomic analysis and D-xylose fermentation of three novel Spathaspora species: Spathaspora girioi sp. nov., Spathaspora hagerdaliae f. a., sp. nov., and Spathaspora gorwiae f. a., sp. nov. FEMS Yeast Res 16: fow044.
  FEMS Yeast Research PubMed    
25. McIlwain SJ, Peris D, Sardi M, Moskvin OV, Zhan F, Myers K, Riley NM, Buzzell A, Parreiras L, Ong IM, Landick R, Coon JJ, Gasch AP, Sato TK, Hittinger CT@. 2016. Genome sequence and analysis of a stress-tolerant, wild-derived strain of Saccharomyces cerevisiae used in biofuels research. G3 (Bethesda) 2016 June 1;6:(6) 1757-66.
  G3 PubMed    
24. Alexander WG, Wisecaver JH, Rokas A, Hittinger CT@. 2016. Horizontally acquired genes in early-diverging pathogenic fungi enable the use of host nucleosides and nucleotides. Proc Natl Acad Sci USA. 2016 Apr 12; 113(15):4116-21.
  PNAS PubMed    
23. Alexander WG, Peris D, Pfannenstiel BT, Opulente DA, Kuang M, Hittinger CT(@). 2016. Efficient engineering of marker-free synthetic allotetraploids of Saccharomyces. Fungal Genet Biol. 2016 Apr; 89: 10-7.
  Fungal Genetics and Biology PubMed Press Coverage  
22. Leducq JB, Nielly-Thibault L, Charron G, Eberlein C, Verta JP, Samani P, Sylvester K, Hittinger CT, Bell G, Landry CR. 2016. Speciation driven by hybridization and chromosomal plasticity in a wild yeast. Nat Microbiol 1: 15003.
  Nature Microbiology PubMed    
21. Baker EC, Wang B, Bellora N, Peris D, Hulfachor A, Koshalek J, Adams M, Libkind D, Hittinger CT(@). 2015. The genome sequence of Saccharomyces eubayanus and the domestication of lager-brewing yeasts. Molecular Biology and Evolution. 2015 Nov; 32:2818-31.
  MBE PubMed Press Coverage  
20. Coelho MA, Almeida JMGCF, Hittinger CT, Gonçalves P. 2015. Draft genome sequence of Sporidiobolus salmonicolor CBS 6832, a red-pigmented basidiomycetous yeast. Genome Announc 3: e00444-15.
  Genome A PubMed    
19. Sylvester K, Wang QM, James B, Mendez R, Hulfachor AB, Hittinger CT(@). 2015. Temperature and host preferences drive the diversification of Saccharomyces and other yeasts: a survey and the discovery of eight new yeast species. FEMS Yeast Res 15:fov002.
  FEMS Yeast Research PubMed Press Coverage  
18. Alexander WG, Doering DT, Hittinger CT(@). 2014. High-efficiency genome editing and allele replacement in prototrophic and wild strains of Saccharomyces. Genetics 2014 Nov; 198(3):859-66.
  Genetics PubMed Press Coverage  
17. Almeida P, Gonçalves C, Teixeira S, Libkind D, Bontrager M, Masneuf-Pomarede I, Albertin W, Durrens P, Sherman DJ, Marullo P, Hittinger CT, Gonçalves P, Sampaio JP. 2014. A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum. Nat Commun 2;5:4044.
  NatureCommunications PubMed    
16. Peris D, Sylvester K, Libkind D, Gonçalves P, Sampaio JP, Alexander WG, Hittinger CT(@). 2014. Population structure and reticulate evolution of Saccharomyces eubayanus and its lager-brewing hybrids. Molecular Ecology 23:2031-2045.
  Molecular Ecology PubMed Press Coverage  
15. Leducq JB, Charron G, Samani P, Dubé AK, Sylvester K, James B, Almeida P, Sampaio JP, Hittinger CT, Bell G, Landry CR. 2014. Local climatic adaptation in a widespread microorganism. Proc Biol Sci 281: 20132472.
  Proc Biol Sci PubMed    
14. Libkind D (&), Hittinger CT (&), Valério E, Gonçalves C, Dover J, Johnston M, Gonçalves P, Sampaio JP. 2011. Microbe domestication and the identification of the wild genetic stock of lager-brewing yeast. Proceedings of the National Academy of Sciences of the USA 108:14539-44.
  PNAS PubMed Press Coverage Data Link
13. Scannell DR (&), Zill OA (&@), Rokas A, Payen C, Dunham MJ, Eisen MB, Rine J, Johnston M, Hittinger CT (@). 2011. The awesome power of yeast evolutionary genetics: New genome sequences and strain resources for the Saccharomyces sensu stricto genus. G3: Genes | Genomes | Genetics 1: 11-25.
  G3 PubMed Press Coverage Data Link
12. Hittinger CT, Gonçalves P, Sampaio JP, Dover J, Johnston M, Rokas A. 2010. Remarkably ancient balanced polymorphisms in a multi-locus gene network. Nature 464: 54-58.
  Nature PubMed Press Coverage Data Link
11. Hittinger CT, Johnston M, Tossberg JT, Rokas A. 2010. Leveraging skewed transcript abundance by RNA-Seq to increase the genomic depth of the tree of life. Proceedings of the National Academy of Sciences of the USA 107 (4): 1476-1481.
  PNAS PubMed Press Coverage Data Link
10. Gibbons JG, Janson EM, Hittinger CT, Johnston M, Abbot P, Rokas A. 2009. Benchmarking next-generation transcriptome sequencing for functional and evolutionary genomics. Molecular Biology and Evolution 26 (12): 2731-2744.
  MBE PubMed    
9. Hittinger CT, Carroll SB. 2008. Evolution of an insect-specific GROUCHO interaction motif in the ENGRAILED selector protein. Evolution and Development 10 (5): 537-545.
  Evolution & Development PubMed    
8. Hittinger CT (@), Carroll SB (@). 2007. Gene duplication and the adaptive evolution of a classic genetic switch. Nature 449 (7163): 677-681.
  Nature PubMed Press Coverage Faculty of 10008.0
7. Tour E, Hittinger CT, McGinnis W. 2005. Evolutionarily conserved domains required for activation and repression functions of the Drosophila Ultrabithorax protein. Development 132 (23): 5271-5281.
  Development PubMed    
6. Hittinger CT, Stern DL, Carroll SB. 2005. Pleiotropic functions of a conserved insect-specific Hox peptide motif. Development 132 (23): 5261-5270.
  Development PubMed Press Coverage Faculty of 10006.0
5. Hittinger CT, Rokas A, Carroll SB. 2004. Parallel inactivation of multiple GAL pathway genes and ecological diversification in yeasts. Proceedings of the National Academy of Sciences of the USA 101 (39): 14144-14149.
  PNAS PubMed Press Coverage  
4. Palangat M, Hittinger CT, Landick R. 2004. Downstream DNA selectively affects a paused conformation of human RNA polymerase II. Journal of Molecular Biology 341 (2): 429-442.
  JMB PubMed    
3. King N, Hittinger CT, Carroll SB. 2003. Evolution of key cell signaling and adhesion protein families predates animal origins. Science 301 (5631): 361-363.
  Science PubMed   Faculty of 10004.8
2. Guettler S, Jackson EN, Lucchese SA, Honaas L, Green A, Hittinger CT, Tian Y, Lilly WW, and Gathman AC. 2003. ESTs from the basidiomycete Schizophyllum commune grown on nitrogen-replete and nitrogen-limited media. Fungal Genetics and Biology 39 (2): 191-198.
  Fungal Genetics and Biology PubMed    
1. Vigouroux Y, McMullen M, Hittinger CT, Houchins K, Schulz L, Kresovich S, Matsuoka Y, Doebley J. 2002. Identifying genes of agronomic importance in maize by screening microsatellites for evidence of selection during domestication. Proceedings of the National Academy of Sciences of the USA 99 (15): 9650-9655.
  PNAS PubMed   Faculty of 10003.0
   
         

 

REVIEWS AND COMMENTARY

R5. Hittinger CT@, Rokas A, Bai FY, Boekhout T, Gonçalves P, Jeffries TW, Kominek J, Lachance MA, Libkind D, Rosa CA, Sampaio JP, Kurtzman CP. Genomics and the making of yeast biodiversity. Curr Opin Genet Dev, 2015 Dec;35:100-9.
  Science PubMed    
R4. Hittinger CT (@), 2013. Saccharomyces diversity and evolution: a budding model genus. Trends in Genetics 29 (5): 309-317.
  Science PubMed   Cover by CT HIttinger
R3. Hittinger CT (@), 2012. Endless rots most beautiful. Science 336 (6089): 1649-1650.
  Science PubMed    
R2. Hittinger CT (@), Hesselberth JR. 2010. Nucleosome patterning evolution: steady aim despite moving targets. Molecular Systems Biology 6: 376.
  Molecular Systems Biology PubMed    
R1. Rokas A, Hittinger CT. 2007. Transcriptional rewiring: the proof is in the eating.  Current Biology 17 (16): R626-R628.
  Current Biology PubMed    
   
         

 

CONTACT INFORMATION:

Chris Todd Hittinger
Laboratory of Genetics
425-G Henry Mall
4340-4360 Genetics/Biotechnology Center
Madison, Wisconsin 53706-1580
United States

Contact the Lab: HittingerLab at genetics(dot) wisc(dot)edu UW Directory Link


©2008-2017 by Chris Todd Hittinger