Publications

• 1. Farnsworth CW
  2. Schott EM
  3. Jensen SE
  4. Zukoski J
  5. Benvie AM
  6. Refaai MA
  7. Kates SL
  8. Schwarz EM
  9. Zuscik MJ
  10. Gill SR
  11. Mooney RA
  (2017 Mar 20). Adaptive upregulation of Clumping Factor A (ClfA) by S. aureus in the obese, type 2 diabetic host mediates increased virulence. Infection and immunity.
• 1. Caserta MT
  2. Yang H
  3. Gill SR
  4. Holden-Wiltse J
  5. Pryhuber G
  (2017 Mar). Viral Respiratory Infections in Preterm Infants during and after Hospitalization. The Journal of pediatrics.
• 1. Nakatsuji T
  2. Chen TH
  3. Narala S
  4. Chun KA
  5. Two AM
  6. Yun T
  7. Shafiq F
  8. Kotol PF
  9. Bouslimani A
  10. Melnik AV
  11. Latif H
  12. Kim JN
  13. Lockhart A
  14. Artis K
  15. David G
  16. Taylor P
  17. Streib J
  18. Dorrestein PC
  19. Grier A
  20. Gill SR
  21. Zengler K
  22. Hata TR
  23. Leung DY
  24. Gallo RL
  (2017 Feb 22). Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis. Science translational medicine.
• 1. Chu CY
  2. Qiu X
  3. Wang L
  4. Bhattacharya S
  5. Lofthus G
  6. Corbett A
  7. Holden-Wiltse J
  8. Grier A
  9. Tesini B
  10. Gill SR
  11. Falsey AR
  12. Caserta MT
  13. Walsh EE
  14. Mariani TJ
  (2016). The Healthy Infant Nasal Transcriptome: A Benchmark Study. Scientific reports.
• 1. Merkley MA
  2. Bice TC
  3. Grier A
  4. Strohl AM
  5. Man LX
  6. Gill SR
  (2015 Oct). The effect of antibiotics on the microbiome in acute exacerbations of chronic rhinosinusitis. International forum of allergy & rhinology.
• 1. Strange C
  2. Senior RM
  3. Sciurba F
  4. O'Neal S
  5. Morris A
  6. Wisniewski SR
  7. Bowler R
  8. Hochheiser HS
  9. Becich MJ
  10. Zhang Y
  11. Leader JK
  12. Methé BA
  13. Kaminski N
  14. Sandhaus RA
  (2015 Oct). Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis Study. Alpha-1 Protocol. Annals of the American Thoracic Society.
• 1. Moller DR
  2. Koth LL
  3. Maier LA
  4. Morris A
  5. Drake W
  6. Rossman M
  7. Leader JK
  8. Collman RG
  9. Hamzeh N
  10. Sweiss NJ
  11. Zhang Y
  12. O'Neal S
  13. Senior RM
  14. Becich M
  15. Hochheiser HS
  16. Kaminski N
  17. Wisniewski SR
  18. Gibson KF
  (2015 Oct). Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis (GRADS) Study. Sarcoidosis Protocol. Annals of the American Thoracic Society.
• 1. Sharma-Kuinkel BK
  2. Mongodin EF
  3. Myers JR
  4. Vore KL
  5. Canfield GS
  6. Fraser CM
  7. Rude TH
  8. Fowler VG
  9. Gill SR
  (2015 Sep). Potential Influence of Staphylococcus aureus Clonal Complex 30 Genotype and Transcriptome on Hematogenous Infections. Open forum infectious diseases.
• 1. Lenhard JR
  2. Brown T
  3. Rybak MJ
  4. Meaney CJ
  5. Norgard NB
  6. Bulman ZP
  7. Brazeau DA
  8. Gill SR
  9. Tsuji BT
  (2015). Sequential Evolution of Vancomycin-Intermediate Resistance Alters Virulence in Staphylococcus aureus: Pharmacokinetic/Pharmacodynamic Targets for Vancomycin Exposure. Antimicrobial agents and chemotherapy.
• 1. Dardas M
  2. Gill SR
  3. Grier A
  4. Pryhuber GS
  5. Gill AL
  6. Lee YH
  7. Guillet R
  (2014 Aug). The impact of postnatal antibiotics on the preterm intestinal microbiome. Pediatric research.
• 1. Edholm ES
  2. Albertorio Saez LM
  3. Gill AL
  4. Gill SR
  5. Grayfer L
  6. Haynes N
  7. Myers JR
  8. Robert J
  (2013 Aug 27). Nonclassical MHC class I-dependent invariant T cells are evolutionarily conserved and prominent from early development in amphibians. Proceedings of the National Academy of Sciences of the United States of America.
• 1. Russo TA
  2. Gill SR
  (2013 Mar). Draft Genome Sequence of the Hypervirulent Klebsiella pneumoniae Strain hvKP1, Isolated in Buffalo, New York. Genome announcements.
• 1. Zhu L
  2. Baker SS
  3. Gill C
  4. Liu W
  5. Alkhouri R
  6. Baker RD
  7. Gill SR
  (2013 Feb). Characterization of gut microbiomes in nonalcoholic steatohepatitis (NASH) patients: a connection between endogenous alcohol and NASH. Hepatology (Baltimore, Md.).
• 1. Canfield GS
  2. Schwingel JM
  3. Foley MH
  4. Vore KL
  5. Boonanantanasarn K
  6. Gill AL
  7. Sutton MD
  8. Gill SR
  (2013 Feb). Evolution in fast forward: a potential role for mutators in accelerating Staphylococcus aureus pathoadaptation. Journal of bacteriology.
• 1. Boonanantanasarn K
  2. Gill AL
  3. Yap Y
  4. Jayaprakash V
  5. Sullivan MA
  6. Gill SR
  (2012 Oct). Enterococcus faecalis enhances cell proliferation through hydrogen peroxide-mediated epidermal growth factor receptor activation. Infection and immunity.
• 1. Nikitkova AE
  2. Haase EM
  3. Vickerman MM
  4. Gill SR
  5. Scannapieco FA
  (2012 Mar). Response of fatty acid synthesis genes to the binding of human salivary amylase by Streptococcus gordonii. Applied and environmental microbiology.
• 1. Kos VN
  2. Desjardins CA
  3. Griggs A
  4. Cerqueira G
  5. Van Tonder A
  6. Holden MT
  7. Godfrey P
  8. Palmer KL
  9. Bodi K
  10. Mongodin EF
  11. Wortman J
  12. Feldgarden M
  13. Lawley T
  14. Gill SR
  15. Haas BJ
  16. Birren B
  17. Gilmore MS
  (2012). Comparative genomics of vancomycin-resistant Staphylococcus aureus strains and their positions within the clade most commonly associated with Methicillin-resistant S. aureus hospital-acquired infection in the United States. mBio.
• 1. Jayaprakash V
  2. Reid M
  3. Hatton E
  4. Merzianu M
  5. Rigual N
  6. Marshall J
  7. Gill S
  8. Frustino J
  9. Wilding G
  10. Loree T
  11. Popat S
  12. Sullivan M
  (2011 Nov). Human papillomavirus types 16 and 18 in epithelial dysplasia of oral cavity and oropharynx: a meta-analysis, 1985-2010. Oral oncology.
• 1. Faden H
  2. Gill S
  3. Lesse A
  (2011 Oct). Impact of management and bacterial genomics on outcomes of Staphylococcus aureus bacteremia in children. Clinical pediatrics.
• 1. Nair D
  2. Memmi G
  3. Hernandez D
  4. Bard J
  5. Beaume M
  6. Gill S
  7. Francois P
  8. Cheung AL
  (2011 May). Whole-genome sequencing of Staphylococcus aureus strain RN4220, a key laboratory strain used in virulence research, identifies mutations that affect not only virulence factors but also the fitness of the strain. Journal of bacteriology.
• 1. Glasner JD
  2. Yang CH
  3. Reverchon S
  4. Hugouvieux-Cotte-Pattat N
  5. Condemine G
  6. Bohin JP
  7. Van Gijsegem F
  8. Yang S
  9. Franza T
  10. Expert D
  11. Plunkett G
  12. San Francisco MJ
  13. Charkowski AO
  14. Py B
  15. Bell K
  16. Rauscher L
  17. Rodriguez-Palenzuela P
  18. Toussaint A
  19. Holeva MC
  20. He SY
  21. Douet V
  22. Boccara M
  23. Blanco C
  24. Toth I
  25. Anderson BD
  26. Biehl BS
  27. Mau B
  28. Flynn SM
  29. Barras F
  30. Lindeberg M
  31. Birch PR
  32. Tsuyumu S
  33. Shi X
  34. Hibbing M
  35. Yap MN
  36. Carpentier M
  37. Dassa E
  38. Umehara M
  39. Kim JF
  40. Rusch M
  41. Soni P
  42. Mayhew GF
  43. Fouts DE
  44. Gill SR
  45. Blattner FR
  46. Keen NT
  47. Perna NT
  (2011 Apr). Genome sequence of the plant-pathogenic bacterium Dickeya dadantii 3937. Journal of bacteriology.
• 1. Madhusoodanan J
  2. Seo KS
  3. Remortel B
  4. Park JY
  5. Hwang SY
  6. Fox LK
  7. Park YH
  8. Deobald CF
  9. Wang D
  10. Liu S
  11. Daugherty SC
  12. Gill AL
  13. Bohach GA
  14. Gill SR
  (2011 Apr). An Enterotoxin-Bearing Pathogenicity Island in Staphylococcus epidermidis. Journal of bacteriology.
• 1. Gill SR
  2. McIntyre LM
  3. Nelson CL
  4. Remortel B
  5. Rude T
  6. Reller LB
  7. Fowler VG
  (2011). Potential associations between severity of infection and the presence of virulence-associated genes in clinical strains of Staphylococcus aureus. PloS one.
• 1. Christie GE
  2. Matthews AM
  3. King DG
  4. Lane KD
  5. Olivarez NP
  6. Tallent SM
  7. Gill SR
  8. Novick RP
  (2010 Nov 25). The complete genomes of Staphylococcus aureus bacteriophages 80 and 80α--implications for the specificity of SaPI mobilization. Virology.
• 1. Gerrish RS
  2. Gill SR
  (2010 Nov). Tailed pooled suppression subtractive hybridization (PSSH) adaptors do not alter efficiency. Antonie van Leeuwenhoek.
• 1. Bik EM
  2. Long CD
  3. Armitage GC
  4. Loomer P
  5. Emerson J
  6. Mongodin EF
  7. Nelson KE
  8. Gill SR
  9. Fraser-Liggett CM
  10. Relman DA
  (2010 Aug). Bacterial diversity in the oral cavity of 10 healthy individuals. The ISME journal.
• 1. Gerrish RS
  2. Gill AL
  3. Fowler VG
  4. Gill SR
  (2010 Apr). Development of pooled suppression subtractive hybridization to analyze the pangenome of Staphylococcus aureus. Journal of microbiological methods.
• 1. Qu J
  2. Lesse AJ
  3. Brauer AL
  4. Cao J
  5. Gill SR
  6. Murphy TF
  (2010). Proteomic expression profiling of Haemophilus influenzae grown in pooled human sputum from adults with chronic obstructive pulmonary disease reveal antioxidant and stress responses. BMC microbiology.
• 1. Jayaprakash V
  2. Sullivan M
  3. Merzianu M
  4. Rigual NR
  5. Loree TR
  6. Popat SR
  7. Moysich KB
  8. Ramananda S
  9. Johnson T
  10. Marshall JR
  11. Hutson AD
  12. Mang TS
  13. Wilson BC
  14. Gill SR
  15. Frustino J
  16. Bogaards A
  17. Reid ME
  (2009 Nov). Autofluorescence-guided surveillance for oral cancer. Cancer prevention research (Philadelphia, Pa.).
• 1. Lin EA
  2. Zhang XS
  3. Levine SM
  4. Gill SR
  5. Falush D
  6. Blaser MJ
  (2009 Mar). Natural transformation of helicobacter pylori involves the integration of short DNA fragments interrupted by gaps of variable size. PLoS pathogens.
• 1. Heo SM
  2. Haase EM
  3. Lesse AJ
  4. Gill SR
  5. Scannapieco FA
  (2008 Dec 15). Genetic relationships between respiratory pathogens isolated from dental plaque and bronchoalveolar lavage fluid from patients in the intensive care unit undergoing mechanical ventilation. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.
• 1. Jakubovics NS
  2. Gill SR
  3. Vickerman MM
  4. Kolenbrander PE
  (2008 Dec). Role of hydrogen peroxide in competition and cooperation between Streptococcus gordonii and Actinomyces naeslundii. FEMS microbiology ecology.
• 1. Adams MD
  2. Goglin K
  3. Molyneaux N
  4. Hujer KM
  5. Lavender H
  6. Jamison JJ
  7. MacDonald IJ
  8. Martin KM
  9. Russo T
  10. Campagnari AA
  11. Hujer AM
  12. Bonomo RA
  13. Gill SR
  (2008 Dec). Comparative genome sequence analysis of multidrug-resistant Acinetobacter baumannii. Journal of bacteriology.
• 1. Russo TA
  2. Beanan JM
  3. Olson R
  4. MacDonald U
  5. Luke NR
  6. Gill SR
  7. Campagnari AA
  (2008 Aug). Rat pneumonia and soft-tissue infection models for the study of Acinetobacter baumannii biology. Infection and immunity.
• 1. Jakubovics NS
  2. Gill SR
  3. Iobst SE
  4. Vickerman MM
  5. Kolenbrander PE
  (2008 May). Regulation of gene expression in a mixed-genus community: stabilized arginine biosynthesis in Streptococcus gordonii by coaggregation with Actinomyces naeslundii. Journal of bacteriology.
• 1. Vickerman MM
  2. Iobst S
  3. Jesionowski AM
  4. Gill SR
  (2007 Nov). Genome-wide transcriptional changes in Streptococcus gordonii in response to competence signaling peptide. Journal of bacteriology.
• 1. Fowler VG
  2. Nelson CL
  3. McIntyre LM
  4. Kreiswirth BN
  5. Monk A
  6. Archer GL
  7. Federspiel J
  8. Naidich S
  9. Remortel B
  10. Rude T
  11. Brown P
  12. Reller LB
  13. Corey GR
  14. Gill SR
  (2007 Sep 1). Potential associations between hematogenous complications and bacterial genotype in Staphylococcus aureus infection. The Journal of infectious diseases.
• 1. Rasko DA
  2. Rosovitz MJ
  3. Økstad OA
  4. Fouts DE
  5. Jiang L
  6. Cer RZ
  7. Kolstø AB
  8. Gill SR
  9. Ravel J
  (2007 Jan). Complete sequence analysis of novel plasmids from emetic and periodontal Bacillus cereus isolates reveals a common evolutionary history among the B. cereus-group plasmids, including Bacillus anthracis pXO1. Journal of bacteriology.
• 1. Vickerman MM
  2. Brossard KA
  3. Funk DB
  4. Jesionowski AM
  5. Gill SR
  (2007 Jan). Phylogenetic analysis of bacterial and archaeal species in symptomatic and asymptomatic endodontic infections. Journal of medical microbiology.
• 1. Gardete S
  2. Wu SW
  3. Gill S
  4. Tomasz A
  (2006 Oct). Role of VraSR in antibiotic resistance and antibiotic-induced stress response in Staphylococcus aureus. Antimicrobial agents and chemotherapy.
• 1. Pieper R
  2. Gatlin-Bunai CL
  3. Mongodin EF
  4. Parmar PP
  5. Huang ST
  6. Clark DJ
  7. Fleischmann RD
  8. Gill SR
  9. Peterson SN
  (2006 Aug). Comparative proteomic analysis of Staphylococcus aureus strains with differences in resistance to the cell wall-targeting antibiotic vancomycin. Proteomics.
• 1. Gill SR
  2. Pop M
  3. Deboy RT
  4. Eckburg PB
  5. Turnbaugh PJ
  6. Samuel BS
  7. Gordon JI
  8. Relman DA
  9. Fraser-Liggett CM
  10. Nelson KE
  (2006 Jun 2). Metagenomic analysis of the human distal gut microbiome. Science (New York, N.Y.).
• 1. Fouts DE
  2. Rasko DA
  3. Cer RZ
  4. Jiang L
  5. Fedorova NB
  6. Shvartsbeyn A
  7. Vamathevan JJ
  8. Tallon L
  9. Althoff R
  10. Arbogast TS
  11. Fadrosh DW
  12. Read TD
  13. Gill SR
  (2006 May). Sequencing Bacillus anthracis typing phages gamma and cherry reveals a common ancestry. Journal of bacteriology.
• 1. Diep BA
  2. Gill SR
  3. Chang RF
  4. Phan TH
  5. Chen JH
  6. Davidson MG
  7. Lin F
  8. Lin J
  9. Carleton HA
  10. Mongodin EF
  11. Sensabaugh GF
  12. Perdreau-Remington F
  (2006 Mar 4). Complete genome sequence of USA300, an epidemic clone of community-acquired meticillin-resistant Staphylococcus aureus. Lancet (London, England).
• 1. Gatlin CL
  2. Pieper R
  3. Huang ST
  4. Mongodin E
  5. Gebregeorgis E
  6. Parmar PP
  7. Clark DJ
  8. Alami H
  9. Papazisi L
  10. Fleischmann RD
  11. Gill SR
  12. Peterson SN
  (2006 Mar). Proteomic profiling of cell envelope-associated proteins from Staphylococcus aureus. Proteomics.
• 1. Bik EM
  2. Eckburg PB
  3. Gill SR
  4. Nelson KE
  5. Purdom EA
  6. Francois F
  7. Perez-Perez G
  8. Blaser MJ
  9. Relman DA
  (2006 Jan 17). Molecular analysis of the bacterial microbiota in the human stomach. Proceedings of the National Academy of Sciences of the United States of America.
• 1. Mongodin EF
  2. Hance IR
  3. Deboy RT
  4. Gill SR
  5. Daugherty S
  6. Huber R
  7. Fraser CM
  8. Stetter K
  9. Nelson KE
  (2005 Jul). Gene transfer and genome plasticity in Thermotoga maritima, a model hyperthermophilic species. Journal of bacteriology.
• 1. Eckburg PB
  2. Bik EM
  3. Bernstein CN
  4. Purdom E
  5. Dethlefsen L
  6. Sargent M
  7. Gill SR
  8. Nelson KE
  9. Relman DA
  (2005 Jun 10). Diversity of the human intestinal microbial flora. Science (New York, N.Y.).
• 1. Gill SR
  2. Fouts DE
  3. Archer GL
  4. Mongodin EF
  5. Deboy RT
  6. Ravel J
  7. Paulsen IT
  8. Kolonay JF
  9. Brinkac L
  10. Beanan M
  11. Dodson RJ
  12. Daugherty SC
  13. Madupu R
  14. Angiuoli SV
  15. Durkin AS
  16. Haft DH
  17. Vamathevan J
  18. Khouri H
  19. Utterback T
  20. Lee C
  21. Dimitrov G
  22. Jiang L
  23. Qin H
  24. Weidman J
  25. Tran K
  26. Kang K
  27. Hance IR
  28. Nelson KE
  29. Fraser CM
  (2005 Apr). Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillin-resistant Staphylococcus epidermidis strain. Journal of bacteriology.
• 1. Nguyen TN
  2. Ejaz AD
  3. Brancieri MA
  4. Mikula AM
  5. Nelson KE
  6. Gill SR
  7. Noll KM
  (2004 Jul). Whole-genome expression profiling of Thermotoga maritima in response to growth on sugars in a chemostat. Journal of bacteriology.