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Select item 317728331.

Stability of the vaginal, oral, and gut microbiota across pregnancy among African American women: the effect of socioeconomic status and antibiotic exposure.

Dunlop AL, Knight AK, Satten GA, Cutler AJ, Wright ML, Mitchell RM, Read TD, Mulle J, Hertzberg VS, Hill CC, Smith AK, Corwin EJ.

PeerJ. 2019 Nov 21;7:e8004. doi: 10.7717/peerj.8004. eCollection 2019.

PMID:: 31772833

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Select item 314059142.

Interaction between Streptococcus pneumoniae and Staphylococcus aureus Generates ^·OH Radicals That Rapidly Kill Staphylococcus aureus Strains.

Wu X, Gordon O, Jiang W, Antezana BS, Angulo-Zamudio UA, Del Rio C, Moller A, Brissac T, Tierney ARP, Warncke K, Orihuela CJ, Read TD, Vidal JE.

J Bacteriol. 2019 Oct 4;201(21). pii: e00474-19. doi: 10.1128/JB.00474-19. Print 2019 Nov 1.

PMID:: 31405914

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Select item 309028583.

Determinants of Phage Host Range in Staphylococcus Species.

Moller AG, Lindsay JA, Read TD.

Appl Environ Microbiol. 2019 May 16;85(11). pii: e00209-19. doi: 10.1128/AEM.00209-19. Print 2019 Jun 1. Review.

PMID:: 30902858

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Select item 306878414.

Whole-Genome Sequences of Staphylococcus aureus Isolates from Cystic Fibrosis Lung Infections.

Bernardy EE, Petit RA 3rd, Moller AG, Blumenthal JA, McAdam AJ, Priebe GP, Chande AT, Rishishwar L, Jordan IK, Read TD, Goldberg JB.

Microbiol Resour Announc. 2019 Jan 17;8(3). pii: e01564-18. doi: 10.1128/MRA.01564-18. eCollection 2019 Jan.

PMID:: 30687841

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Select item 305183175.

USA300 Staphylococcus aureus persists on multiple body sites following an infection.

Read TD, Petit RA 3rd, Yin Z, Montgomery T, McNulty MC, David MZ.

BMC Microbiol. 2018 Dec 5;18(1):206. doi: 10.1186/s12866-018-1336-z.

PMID:: 30518317

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Select item 304964836.

Human mAbs to Staphylococcus aureus IsdA Provide Protection Through Both Heme-Blocking and Fc-Mediated Mechanisms.

Bennett MR, Bombardi RG, Kose N, Parrish EH, Nagel MB, Petit RA, Read TD, Schey KL, Thomsen IP, Skaar EP, Crowe JE.

J Infect Dis. 2019 Apr 8;219(8):1264-1273. doi: 10.1093/infdis/jiy635.

PMID:: 30496483

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Select item 303814217.

Genome-Based Prediction of Bacterial Antibiotic Resistance.

Su M, Satola SW, Read TD.

J Clin Microbiol. 2019 Feb 27;57(3). pii: e01405-18. doi: 10.1128/JCM.01405-18. Print 2019 Mar. Review.

PMID:: 30381421

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Select item 303616508.

Whole genome sequencing for investigations of meningococcal outbreaks in the United States: a retrospective analysis.

Whaley MJ, Joseph SJ, Retchless AC, Kretz CB, Blain A, Hu F, Chang HY, Mbaeyi SA, MacNeil JR, Read TD, Wang X.

Sci Rep. 2018 Oct 25;8(1):15803. doi: 10.1038/s41598-018-33622-5.

PMID:: 30361650

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Select item 301553719.

Fine-scale differentiation between Bacillus anthracis and Bacillus cereus group signatures in metagenome shotgun data.

Petit Iii RA, Hogan JM, Ezewudo MN, Joseph SJ, Read TD.

PeerJ. 2018 Aug 22;6:e5515. doi: 10.7717/peerj.5515. eCollection 2018.

PMID:: 30155371

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Select item 3011818010.

Quantitative and qualitative assessment of pollen DNA metabarcoding using constructed species mixtures.

Bell KL, Burgess KS, Botsch JC, Dobbs EK, Read TD, Brosi BJ.

Mol Ecol. 2019 Jan;28(2):431-455. doi: 10.1111/mec.14840. Epub 2018 Sep 7.

PMID:: 30118180

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Select item 3001385811.

Staphylococcus aureus viewed from the perspective of 40,000+ genomes.

Petit RA 3rd, Read TD.

PeerJ. 2018 Jul 12;6:e5261. doi: 10.7717/peerj.5261. eCollection 2018.

PMID:: 30013858

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Select item 2972052812.

Invasive Methicillin-Resistant Staphylococcus aureus USA500 Strains from the U.S. Emerging Infections Program Constitute Three Geographically Distinct Lineages.

Frisch MB, Castillo-Ramírez S, Petit RA 3rd, Farley MM, Ray SM, Albrecht VS, Limbago BM, Hernandez J, See I, Satola SW, Read TD.

mSphere. 2018 May 2;3(3). pii: e00571-17. doi: 10.1128/mSphere.00571-17. eCollection 2018 May-Jun.

PMID:: 29720528

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Select item 2917969413.

Correction to: Protocol for the Emory University African American Vaginal, oral, and gut microbiome in pregnancy cohort study.

Corwin EJ, Hogue CJ, Pearce B, Hill CC, Read TD, Mulle J, Dunlop AL.

BMC Pregnancy Childbirth. 2017 Nov 27;17(1):395. doi: 10.1186/s12884-017-1550-y.

PMID:: 29179694

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Select item 2902913814.

The Female Genital Tract Microbiome Is Associated With Vaginal Antiretroviral Drug Concentrations in Human Immunodeficiency Virus-Infected Women on Antiretroviral Therapy.

Donahue Carlson R, Sheth AN, Read TD, Frisch MB, Mehta CC, Martin A, Haaland RE, Patel AS, Pau CP, Kraft CS, Ofotokun I.

J Infect Dis. 2017 Nov 15;216(8):990-999. doi: 10.1093/infdis/jix420.

PMID:: 29029138

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Select item 2897702515.

Correction: Comprehensive bioinformatics analysis of Mycoplasma pneumoniae genomes to investigate underlying population structure and type-specific determinants.

Diaz MH, Desai HP, Morrison SS, Benitez AJ, Wolff BJ, Caravas J, Read TD, Dean D, Winchell JM.

PLoS One. 2017 Oct 4;12(10):e0186030. doi: 10.1371/journal.pone.0186030. eCollection 2017.

PMID:: 28977025

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Select item 2894686116.

Erratum to: draft sequencing and assembly of the genome of the world's largest fish, the whale shark: Rhincodon typus smith 1828.

Read TD, Petit RA 3rd, Joseph SJ, Alam T, Weil MR, Ahmad M, Bhimani R, Vuong JS, Haase CP, Webb DH, Tan M, Dove ADM.

BMC Genomics. 2017 Sep 25;18(1):755. doi: 10.1186/s12864-017-4138-z. No abstract available.

PMID:: 28946861

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Select item 2870939917.

Draft sequencing and assembly of the genome of the world's largest fish, the whale shark: Rhincodon typus Smith 1828.

Read TD, Petit RA 3rd, Joseph SJ, Alam MT, Weil MR, Ahmad M, Bhimani R, Vuong JS, Haase CP, Webb DH, Tan M, Dove ADM.

BMC Genomics. 2017 Jul 14;18(1):532. doi: 10.1186/s12864-017-3926-9. Erratum in: BMC Genomics. 2017 Sep 25;18(1):755.

PMID:: 28709399

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Select item 2857157718.

Protocol for the Emory University African American Vaginal, Oral, and Gut Microbiome in Pregnancy Cohort Study.

Corwin EJ, Hogue CJ, Pearce B, Hill CC, Read TD, Mulle J, Dunlop AL.

BMC Pregnancy Childbirth. 2017 Jun 1;17(1):161. doi: 10.1186/s12884-017-1357-x. Erratum in: BMC Pregnancy Childbirth. 2017 Nov 27;17 (1):395.

PMID:: 28571577

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Select item 2856267219.

Rapid detection and strain typing of Chlamydia trachomatis using a highly multiplexed microfluidic PCR assay.

Turingan RS, Kaplun L, Krautz-Peterson G, Norsworthy S, Zolotova A, Joseph SJ, Read TD, Dean D, Tan E, Selden RF.

PLoS One. 2017 May 31;12(5):e0178653. doi: 10.1371/journal.pone.0178653. eCollection 2017.

PMID:: 28562672

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Select item 2841036820.

Comprehensive bioinformatics analysis of Mycoplasma pneumoniae genomes to investigate underlying population structure and type-specific determinants.

Diaz MH, Desai HP, Morrison SS, Benitez AJ, Wolff BJ, Caravas J, Read TD, Dean D, Winchell JM.

PLoS One. 2017 Apr 14;12(4):e0174701. doi: 10.1371/journal.pone.0174701. eCollection 2017. Erratum in: PLoS One. 2017 Oct 4;12 (10 ):e0186030.

PMID:: 28410368

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Select item 2837354721.

Emergence of a new Neisseria meningitidis clonal complex 11 lineage 11.2 clade as an effective urogenital pathogen.

Tzeng YL, Bazan JA, Turner AN, Wang X, Retchless AC, Read TD, Toh E, Nelson DE, Del Rio C, Stephens DS.

Proc Natl Acad Sci U S A. 2017 Apr 18;114(16):4237-4242. doi: 10.1073/pnas.1620971114. Epub 2017 Apr 3.

PMID:: 28373547

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Select item 2837319822.

Lung Tissue Concentrations of Pyrazinamide among Patients with Drug-Resistant Pulmonary Tuberculosis.

Kempker RR, Heinrichs MT, Nikolaishvili K, Sabulua I, Bablishvili N, Gogishvili S, Avaliani Z, Tukvadze N, Little B, Bernheim A, Read TD, Guarner J, Derendorf H, Peloquin CA, Blumberg HM, Vashakidze S.

Antimicrob Agents Chemother. 2017 May 24;61(6). pii: e00226-17. doi: 10.1128/AAC.00226-17. Print 2017 Jun.

PMID:: 28373198

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Select item 2832879923.

Oral microbiome in HIV-associated periodontitis.

Noguera-Julian M, Guillén Y, Peterson J, Reznik D, Harris EV, Joseph SJ, Rivera J, Kannanganat S, Amara R, Nguyen ML, Mutembo S, Paredes R, Read TD, Marconi VC.

Medicine (Baltimore). 2017 Mar;96(12):e5821. doi: 10.1097/MD.0000000000005821.

PMID:: 28328799

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Select item 2822397024.

Tet(C) Gene Transfer between Chlamydia suis Strains Occurs by Homologous Recombination after Co-infection: Implications for Spread of Tetracycline-Resistance among Chlamydiaceae.

Marti H, Kim H, Joseph SJ, Dojiri S, Read TD, Dean D.

Front Microbiol. 2017 Feb 7;8:156. doi: 10.3389/fmicb.2017.00156. eCollection 2017.

PMID:: 28223970

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Select item 2778116625.

The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data.

Joseph SJ, Li B, Petit Iii RA, Qin ZS, Darrow L, Read TD.

PeerJ. 2016 Oct 18;4:e2571. eCollection 2016.

PMID:: 27781166

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Select item 2763376926.

Dynamics of genome change among Legionella species.

Joseph SJ, Cox D, Wolff B, Morrison SS, Kozak-Muiznieks NA, Frace M, Didelot X, Castillo-Ramirez S, Winchell J, Read TD, Dean D.

Sci Rep. 2016 Sep 16;6:33442. doi: 10.1038/srep33442.

PMID:: 27633769

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Select item 2757653727.

Tetracycline Selective Pressure and Homologous Recombination Shape the Evolution of Chlamydia suis: A Recently Identified Zoonotic Pathogen.

Joseph SJ, Marti H, Didelot X, Read TD, Dean D.

Genome Biol Evol. 2016 Sep 2;8(8):2613-23. doi: 10.1093/gbe/evw182.

PMID:: 27576537

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Select item 2757283828.

Antibiotic failure mediated by a resistant subpopulation in Enterobacter cloacae.

Band VI, Crispell EK, Napier BA, Herrera CM, Tharp GK, Vavikolanu K, Pohl J, Read TD, Bosinger SE, Trent MS, Burd EM, Weiss DS.

Nat Microbiol. 2016 May 9;1(6):16053. doi: 10.1038/nmicrobiol.2016.53.

PMID:: 27572838

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Select item 2656403729.

Draft Genome Sequence of the Pandoraea apista LMG 16407 Type Strain.

Millard AD, Westblade LF, LiPuma JJ, Vavikolanu K, Read TD, Pallen MJ, Burd EM, Constantinidou CI.

Genome Announc. 2015 Nov 12;3(6). pii: e01300-15. doi: 10.1128/genomeA.01300-15.

PMID:: 26564037

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Select item 2650779930.

Chlamydiaceae Genomics Reveals Interspecies Admixture and the Recent Evolution of Chlamydia abortus Infecting Lower Mammalian Species and Humans.

Joseph SJ, Marti H, Didelot X, Castillo-Ramirez S, Read TD, Dean D.

Genome Biol Evol. 2015 Oct 27;7(11):3070-84. doi: 10.1093/gbe/evv201.

PMID:: 26507799

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Select item 2622906931.

Characterization of a spermine/spermidine transport system reveals a novel DNA sequence duplication in Neisseria gonorrhoeae.

Goytia M, Hawel L 3rd, Dhulipala VL, Joseph SJ, Read TD, Shafer WM.

FEMS Microbiol Lett. 2015 Aug;362(16). pii: fnv125. doi: 10.1093/femsle/fnv125. Epub 2015 Jul 30.

PMID:: 26229069

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Select item 2607540232.

'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens.

Worby CJ, Read TD.

PLoS One. 2015 Jun 15;10(6):e0129745. doi: 10.1371/journal.pone.0129745. eCollection 2015.

PMID:: 26075402

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Select item 2585216533.

USA300 and USA500 clonal lineages of Staphylococcus aureus do not produce a capsular polysaccharide due to conserved mutations in the cap5 locus.

Boyle-Vavra S, Li X, Alam MT, Read TD, Sieth J, Cywes-Bentley C, Dobbins G, David MZ, Kumar N, Eells SJ, Miller LG, Boxrud DJ, Chambers HF, Lynfield R, Lee JC, Daum RS.

MBio. 2015 Apr 7;6(2). pii: e02585-14. doi: 10.1128/mBio.02585-14.

PMID:: 25852165

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Select item 2578076234.

Population structure of Neisseria gonorrhoeae based on whole genome data and its relationship with antibiotic resistance.

Ezewudo MN, Joseph SJ, Castillo-Ramirez S, Dean D, Del Rio C, Didelot X, Dillon JA, Selden RF, Shafer WM, Turingan RS, Unemo M, Read TD.

PeerJ. 2015 Mar 5;3:e806. doi: 10.7717/peerj.806. eCollection 2015.

PMID:: 25780762

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Select item 2575949735.

Transmission and microevolution of USA300 MRSA in U.S. households: evidence from whole-genome sequencing.

Alam MT, Read TD, Petit RA 3rd, Boyle-Vavra S, Miller LG, Eells SJ, Daum RS, David MZ.

MBio. 2015 Mar 10;6(2):e00054. doi: 10.1128/mBio.00054-15.

PMID:: 25759497

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Select item 2559359336.

Characterizing the genetic basis of bacterial phenotypes using genome-wide association studies: a new direction for bacteriology.

Read TD, Massey RC.

Genome Med. 2014 Nov 22;6(11):109. doi: 10.1186/s13073-014-0109-z. eCollection 2014.

PMID:: 25593593

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Select item 2536791537.

Overproduction of the MtrCDE efflux pump in Neisseria gonorrhoeae produces unexpected changes in cellular transcription patterns.

Ohneck EA, Goytia M, Rouquette-Loughlin CE, Joseph SJ, Read TD, Jerse AE, Shafer WM.

Antimicrob Agents Chemother. 2015 Jan;59(1):724-6. doi: 10.1128/AAC.04148-14. Epub 2014 Nov 3.

PMID:: 25367915

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Select item 2505632638.

Using genomics to standardize population analysis profile-area under the curve ratio for vancomycin-intermediate Staphylococcus aureus.

Read TD, Satola SW.

J Clin Microbiol. 2014 Oct;52(10):3824-6. doi: 10.1128/JCM.01536-14. Epub 2014 Jul 23. No abstract available.

PMID:: 25056326

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Select item 2505632439.

Using crude whole-genome assemblies of Neisseria gonorrhoeae as a platform for strain analysis: clonal spread of gonorrhea infection in Saskatchewan, Canada.

Vidovic S, Caron C, Taheri A, Thakur SD, Read TD, Kusalik A, Dillon JA.

J Clin Microbiol. 2014 Oct;52(10):3772-6. doi: 10.1128/JCM.01502-14. Epub 2014 Jul 23.

PMID:: 25056324

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Select item 2497162840.

Direct amplification, sequencing and profiling of Chlamydia trachomatis strains in single and mixed infection clinical samples.

Joseph SJ, Li B, Ghonasgi T, Haase CP, Qin ZS, Dean D, Read TD.

PLoS One. 2014 Jun 27;9(6):e99290. doi: 10.1371/journal.pone.0099290. eCollection 2014.

PMID:: 24971628

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Select item 2485035541.

Development of oxacillin resistance in a patient with recurrent Staphylococcus aureus bacteremia.

Burd EM, Alam MT, Passalacqua KD, Kalokhe AS, Eaton ME, Satola SW, Kraft CS, Read TD.

J Clin Microbiol. 2014 Aug;52(8):3114-7. doi: 10.1128/JCM.00615-14. Epub 2014 May 21.

PMID:: 24850355

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Select item 2482007242.

Phase-variable expression of lptA modulates the resistance of Neisseria gonorrhoeae to cationic antimicrobial peptides.

Kandler JL, Joseph SJ, Balthazar JT, Dhulipala V, Read TD, Jerse AE, Shafer WM.

Antimicrob Agents Chemother. 2014 Jul;58(7):4230-3. doi: 10.1128/AAC.03108-14. Epub 2014 May 12.

PMID:: 24820072

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Select item 2479537043.

Functional genomic characterization of virulence factors from necrotizing fasciitis-causing strains of Aeromonas hydrophila.

Grim CJ, Kozlova EV, Ponnusamy D, Fitts EC, Sha J, Kirtley ML, van Lier CJ, Tiner BL, Erova TE, Joseph SJ, Read TD, Shak JR, Joseph SW, Singletary E, Felland T, Baze WB, Horneman AJ, Chopra AK.

Appl Environ Microbiol. 2014 Jul;80(14):4162-83. doi: 10.1128/AEM.00486-14. Epub 2014 May 2.

PMID:: 24795370

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Select item 2478761944.

Dissecting vancomycin-intermediate resistance in staphylococcus aureus using genome-wide association.

Alam MT, Petit RA 3rd, Crispell EK, Thornton TA, Conneely KN, Jiang Y, Satola SW, Read TD.

Genome Biol Evol. 2014 Apr 30;6(5):1174-85. doi: 10.1093/gbe/evu092.

PMID:: 24787619

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Select item 2471726445.

Predicting the virulence of MRSA from its genome sequence.

Laabei M, Recker M, Rudkin JK, Aldeljawi M, Gulay Z, Sloan TJ, Williams P, Endres JL, Bayles KW, Fey PD, Yajjala VK, Widhelm T, Hawkins E, Lewis K, Parfett S, Scowen L, Peacock SJ, Holden M, Wilson D, Read TD, van den Elsen J, Priest NK, Feil EJ, Hurst LD, Josefsson E, Massey RC.

Genome Res. 2014 May;24(5):839-49. doi: 10.1101/gr.165415.113. Epub 2014 Apr 9.

PMID:: 24717264

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Select item 2450827146.

The complete mitochondrial genome sequence of the world's largest fish, the whale shark (Rhincodon typus), and its comparison with those of related shark species.

Alam MT, Petit RA 3rd, Read TD, Dove AD.

Gene. 2014 Apr 10;539(1):44-9. doi: 10.1016/j.gene.2014.01.064. Epub 2014 Feb 4.

PMID:: 24508271

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Select item 2436334747.

Genetic evidence for the involvement of the S-layer protein gene sap and the sporulation genes spo0A, spo0B, and spo0F in Phage AP50c infection of Bacillus anthracis.

Plaut RD, Beaber JW, Zemansky J, Kaur AP, George M, Biswas B, Henry M, Bishop-Lilly KA, Mokashi V, Hannah RM, Pope RK, Read TD, Stibitz S, Calendar R, Sozhamannan S.

J Bacteriol. 2014 Mar;196(6):1143-54. doi: 10.1128/JB.00739-13. Epub 2013 Dec 20.