Peer-reviewed publications:


Red – graduate students supervised

Purple – undergraduate students supervised

Green – postdocs supervised


47. Lee IPA, Eldakar OT, Gogarten JP, Andam CP. 2021. Bacterial cooperation through horizontal gene transfer. Trends in Ecology and Evolution DOI: 10.1016/j.tree.2021.11.006

46. Smith JT, Andam CP. 2021. Extensive horizontal gene transfer within and between species of coagulase-negative Staphylococcus. Genome Biol Evol DOI: 10.1093/gbe/evab206. Online ahead of print

45. Smith JT, Eckhardt EM, Hansel NB, Rahmani Eliato T, Martin IW, Andam CP. 2021. Genomic epidemiology of methicillin-resistant and -susceptible Staphylococcus aureus from bloodstream infections. BMC Infect Dis 21:589 PMCID: PMC8215799 DOI: 10.1186/s12879-021-06293-3


44. Park CJ, Caimi NA, Buecher DC, Valdez EW, Northup DE, Andam CP. 2021. Unexpected genomic, biosynthetic and species diversity in Streptomyces bacteria from bats in Arizona and New Mexico, USA. BMC Genomics 22:247. PMCID: Not applicable DOI: 10.1186/s12864-021-07546-w

43. Park CJ, Li J, Zhang X, Gao F, Benton CS, Andam CP. 2021. Diverse lineages of multidrug resistant clinical Salmonella enterica and a cryptic outbreak in New Hampshire, USA revealed from a year-long genomic surveillance. Infect Gen Evol 8:104645. PMCID: Not applicable DOI: 10.1016/j.meegid.2020.104645


42. Eliato TR, Smith JT, Zhen T, Kim ES, Hwang W, Andam CP, Kim YJ. 2020. Melanin pigments extracted from horsehair as antibacterial agents. J Materials Chem B 9:1536. PMCID: Not applicable DOI: 10.1039/D0TB02475A


41. Belknap KC, Cote AL, McGill AM, Andam CP, Barth BM. 2020. The role of the microbiome in cancer and the development of cancer therapeutics. Int J Biopharm Sci 2:118 DOI: 10.31021/ijbs.20203118

40. Needle DB, Marr JL, Park CJ, Andam CP, Wise AG, Maes RK, Wilkes RP, Anis EA, Sidor IF, Agnew D, Ellis JC, Tate P, Mathewson A, Benton C, Gibson R. 2020. Concurrent infection of skunk adenovirus-1, Listeria monocytogenes and a regionally specific clade of canine distemper virus in one gray fox (Urocyon cinereoargenteus) and concurrent listeriosis and canine distemper in a second. Pathogens 9:591. PMCID: PMC7400275 DOI: 10.3390/pathogens9070591

39. Smith JT, Amador S, McGonagle CJ, Needle D, Gibson R, Andam CP. 2020. Population genomics of Staphylococcus pseudintermedius in companion animals in the United States. Comm Biol. 3:282. PMCID: PMC7275049 DOI: 10.1038/s42003-020-1009-y


38. Park CJ, Li J, Zhang X, Gao F, Benton CS, Andam CP. 2020. Genomic epidemiology and evolution of diverse lineages of clinical Campylobacter jejuni co-circulating in New Hampshire, USA, 2017. J Clin Microbiol 58:02070-19. PMCID: PMC7269400 DOI: 10.1128/JCM.02070-19


37. Belknap KC, Park CJ, Barth BM, Andam CP. 2020. Genome mining of biosynthetic and chemotherapeutic gene clusters in Streptomyces bacteria. Sci Reports 10:2003. PMCID: PMC7005152 DOI: 10.1038/s41598-020-58904-9


36. Park CJ, Andam CP. 2020. Distinct but intertwined evolutionary histories of multiple Salmonella enterica subspecies. mSystems 5:e00515-19. PMCID: PMC6967386 DOI: 10.1128/mSystems.00515-19



35. Lee IPA, Andam CP. 2019. Genome diversification and recombination in Cronobacter sakazakii, an opportunistic pathogen in neonates, and insights to its xerotolerant lifestyle. BMC Microbiol 19:306. PMCID: 31881843 DOI: 10.1186/s12866-019-1664-7

34. Andam CP. 2019. Clonal yet different: understanding the causes of genomic heterogeneity in microbial species and impacts on public health. mSystems 4:e00097-19. PMCID: PMC6533373 DOI: 10.1128/mSystems.00097-19

  • This is part of the Special Issue on Early Career Systems Microbiology Scientists “to highlight and share the work of some of the pioneers in systems microbiology science who are just stepping into their first independent research positions”


33. Park CJ, Andam CP. 2019. Within-species genomic variation and variable patterns of recombination in the tetracycline producer Streptomyces rimosus. Frontiers Microbiol 10:552. PMCID: PMC6437091 DOI: 10.3389/fmicb.2019.00552



32. Chang Q, Abuelaish I, Biber A, Jaber H, Callendrello A, Andam CP, Regev-Yochay G, Hanage WP, PICR Study Group. 2018. Genomic epidemiology of meticillin-resistant Staphylococcus aureus ST22 widespread in communities of the Gaza strip, 2009. Euro Surveill 23(34). PMCID: PMC6113745 DOI: 10.2807/1560-7917.ES.2018.23.34.1700592

31. Smith M, Park CJ, Andam CP, Aber J. 2018. Utilization of low grade wood for use as animal bedding: A case study of eastern hemlock. J Forestry 116:520-528. PMCID: Not applicable DOI: 10.1093/jofore/fvy040

30. McGill CM, Tomco PL, Ondrasik RM, Belknap KC, Dwyer GK, Quinlan DJ, Kircher TA, Andam CP, Brown TJ, Claxton DF, Barth BM. 2018. Therapeutic effect of Northern Labrador tea extracts for acute myeloid leukemia. Phytother Res. 32(8):1636-1641. PMCID: Not applicable DOI: 10.1002/ptr.6091



29. Chaguza C, Cornick JE, Andam CP, Gladstone RA, Alaerts M, Musicha P, Peno C, Bar-Zeev N, Kamng'ona AW, Kiran AM, Msefula CL, McGee L, Breiman RF, Kadioglu A, French N, Heyderman RS, Hanage WP, Bentley SD, Everett DB. 2017. Population genetic structure, antibiotic resistance, capsule switching and evolution of invasive pneumococci before conjugate vaccination in Malawi. Vaccine. 35:4594-4602. PMCID: PMC5571440 DOI: 10.1016/j.vaccine.2017.07.009


28.  Andam CP, Worby CJ, Mitchell PK, McGee L, Kim L, Beall B, Hanage WP. 2017. Penicillin resistance of non-vaccine type pneumococcus before and after PCV13 introduction, United States. Emerg Infect Dis 23(6):1012-1015. PMCID: PMC5443431 DOI: 10.3201/eid2306.161331


27.  Mostowy R, Croucher NJ, Andam CP, Corander J, Hanage WP, Marttinen P. 2017. Efficient inference of recent and ancestral recombination within bacterial populations. Mol Biol Evol 34:1167-1182. PMCID: PMC5400400 DOI: 10.1093/molbev/msx066


26. Choudoir MJ, Panke-Buisse K, Andam CP, Buckley DH. 2017. Genome surfing as driver of microbial genomic diversity. Trends Microbiol 25:624-636. PMCID: Not applicable DOI: 10.1016/j.tim.2017.02.006


25. Andam CP, Mitchell PK, Callendrello A, Chang Q, Corander J, Chaguza C, McGee L, Beall B, Hanage WP. 2017. Genomic epidemiology of penicillin non-susceptible pneumococci with nonvaccine serotypes causing invasive disease in the United States. J Clin Microbiol 55:1104-1115. PMCID: PMC5377837 DOI: 10.1128/JCM.02453-16



24.  Harms K, Lunnan A, Hülter N, Mourier T, Vinner L, Andam CP, Marttinen P, Fridholm H, Hansen AJ, Hanage WP, Nielsen KM, Willerslev E, Johnsen PJ. 2016. Substitutions of short heterologous DNA segments of intragenomic or extragenomic origins produce clustered genomic polymorphisms. Proc Nat Acad Sci USA 113(52):15066-15071. PMCID: PMC5206527 DOI: 10.1073/pnas.1615819114


23. Chaguza C, Cornick JE, Harris SR, Andam CP, Bricio-Moreno L, Yang M, Yalcin F, Ousmane S, Govindpersad S, Senghore M, Ebruke C, Plessis MD, Kiran AM, Pluschke G, Sigauque B, McGee L, Klugman KP, Turner P, Corander J, Parkhill J, Collard JM, Antonio M, von Gottberg A, Heyderman RS, French N, Kadioglu A, Hanage WP, Everett DB, Bentley SD, PAGe Consortium. 2016. Understanding pneumococcal serotype 1 biology through population genomic analysis. BMC Infect Dis 16:649. PMCID: PMC5100261 DOI: 10.1186/s12879-016-1987-z


22. Chaguza C, Andam CP, Harris SK, Cornick JE, Yang M, Bricio-Moreno L, Kamng’ona AW, Parkhill J, French N, Heyderman RS, Kadioglu A, Everett DB, Bentley SD, Hanage WP. 2016. Recombination in Streptococcus pneumoniae lineages increase with carriage duration and size of the polysaccharide capsule. mBio 7: e01053-16. PMCID: PMC5040112 DOI: 10.1128/mBio.01053-16

  • Featured in Harvard Microbial Sciences Initiative (MSI). November 2016


21. Andam CP, Worby CJ, Chang Q, Campana MG. 2016. Microbial genomics of ancient plagues and outbreaks. Trends Microbiol 24:978-990. PMCID: Not applicable DOI: 10.1016/j.tim.2016.08.004


20. Andam CP, Doroghazi JR, Campbell AN, Kelly PJ, Choudoir MJ, Buckley DH. 2016. A latitudinal diversity gradient in terrestrial bacteria of the genus Streptomyces. mBio 7:e02200-15. PMCID: PMC4817263 DOI: 10.1128/mBio.02200-15


19. Andam CP, Choudoir MJ, Nguyen VA, Park HS, Buckley DH. 2016. Contributions of ancestral inter-species recombination to the genetic diversity of extant Streptomyces lineages. ISME Journal 10: 1731-1741. PMCID: PMC4918437 DOI: 10.1038/ismej.2015.230


18. Pepe-Ranney C, Koechli C, Potrafka R, Andam C, Eggleston E, Garcia-Pichel F, Buckley DH. 2016. Non-cyanobacterial diazotrophs mediate dinitrogen fixation in biological soil crusts during early crust formation. ISME Journal 10:287-298. PMCID: PMC4737922 DOI: 10.1038/ismej.2015.106



17. Andam CP, Carver SM, Berthrong ST. 2015. Horizontal gene flow in managed ecosystems. Ann Rev Ecol Evol Syst 46:121-143. PMCID: Not applicable DOI: 10.1146/annurev-ecolsys-112414-054126

16. Fournier GP, Andam CP, Gogarten JP. 2015. Ancient horizontal gene transfer and the last common ancestors. BMC Evol Biol 15:70. PMCID: PMC4427996 DOI: 10.1186/s12862-015-0350-0

  • Rated as highly accessed


15. Andam CP, Hanage WP. 2015. Mechanisms of genome evolution in Streptococcus. Infect Genet Evol 33:334–342. PMCID: PMC4430445 DOI: 10.1016/j.meegid.2014.11.007




14. Andam CP, Harlow TJ, Papke RT, Gogarten JP. 2012. Ancient origin of the divergent forms of leucyl-tRNA synthetases in the Halobacteriales. BMC Evol Biol 12:85. PMCID: PMC3436685 DOI: 10.1186/1471-2148-12-85


13. Andrus A, Andam C, Parker MA. 2012. American origin of Cupriavidus bacteria associated with invasive Mimosa legumes in the Philippines. FEMS Microbiol Ecol 80:747–750. PMCID: Not applicable DOI: 10.1111/j.1574-6941.2012.01342.x


12. Fournier GP, Andam CP, Alm EJ, Gogarten JP. 2012.  Molecular evolution of aminoacyl tRNA synthetase proteins in the early history of life. Orig Life Evol Biosph 41:621–632. PMCID: Not applicable DOI: 10.1007/s11084-011-9261-2


11. Andam CP, Driscoll JR, Enke TN, Macula AJ, Gal S. 2012. Comparison of different polymerase chain reaction methods to analyze a DNA computing library. Nat Computing 11:339–349. PMCID: Not applicable DOI: 10.1007/s11047-011-9297-2




10. Andam CP, Gogarten JP. 2011. Biased gene transfer and its implications for the concept of lineage. Biol Direct 6:47. PMCID: PMC3191353 DOI: 10.1186/1745-6150-6-47


9.  Williams D, Fournier GP, Lapierre P, Swithers KS, Green AG, Andam CP, Gogarten JP. 2011.  A rooted net of life. Biol Direct 6:45. PMCID: PMC3189188 DOI: 10.1186/1745-6150-6-45

  • Rated as highly accessed


8.  Andam CP, Gogarten JP. 2011. Biased gene transfer in microbial evolution. Nature Rev Microbiol 9:543–555. PMCID: Not applicable DOI: 10.1038/nrmicro2593


7.  Andam CP, Fournier GP, Gogarten JP. 2011. Multilevel populations and the evolution of antibiotic resistance through horizontal gene transfer. FEMS Microbiol Rev 35:756–767. PMCID: Not applicable DOI: 10.1111/j.1574-6976.2011.00274.x



6.  Andam CP, Williams D, Gogarten JP. 2010. Biased gene transfer mimics patterns created through shared ancestry. Proc Nat Acad Sci USA 107:10679–10684. PMCID: PMC2890805 DOI: 10.1073/pnas.1001418107

  • Reviewed by Dr. Yuri Wolf of NCBI, NLM, NIH in the Faculty of 1000 Biology; Rated as New Finding, Controversial, Interesting Hypothesis; June 17, 2010


5. Andam CP, Williams D, Gogarten JP. 2010. Natural taxonomy in light of horizontal gene transfer. Special issue on the Tree of Life. Biol & Philo 25:589–602. PMCID: Not applicable DOI: 10.1007/s10539-010-9212-8




4.  Macula AJ, Gal S, Andam C, Renz TE, Bishop MA. 2009. PCR non-adaptive group testing of DNA libraries for biomolecular computing and taggant applications. Discrete Math Algorithms Appl 1:59–69. PMCID: Not applicable DOI: 10.1142/S1793830909000051



3.  Andam CP, Parker MA. 2008. Origins of Bradyrhizobium nodule symbionts from two legume trees in the Philippines. J Biogeog 35: 1030–1039. PMCID: Not applicable DOI: 10.1111/j.1365-2699.2007.01844.x



2.  Andam CP, Parker MA. 2007.  Novel Alphaproteobacterial root nodule symbiont associated with Lupinus texensis. Appl Environ Microbiol 73: 5687–5691. PMCID: PMC2042092 DOI: 10.1128/AEM.01413-07    


1.  Andam CP, Mondo SJ, Parker MA. 2007. Monophyly of nodA and nifH genes across Texas and Costa Rican populations of Cupriavidus nodule symbionts.  Appl Environ Microbiol 73: 4686–4690. PMCID: PMC1932833 DOI: 10.1128/AEM.00160-07

Book chapters:



4.    Park CJ, Smith JTAndam CP. 2019. Horizontal gene transfer in Actinobacteria. InHorizontal Gene Transfer - Breaking Borders between Living Kingdoms (Villa TG, Vinas M, eds.) Springer. ISBN 978-3-030-21861-4

3.   Andam CP, Challagundla L, Azarian T, Hanage WP, Robinson DA. 2017. Population structure of pathogenic bacteria. InGenetics and Evolution of Infectious Diseases 2nd ed (Tibayrenc M, ed.) Elsevier Inc. ISBN: 978-0-1279-9942-5

2.   Andam CP, Gogarten JP. 2013. Biased gene transfer contributes to maintaining the Tree of Life. InLateral Gene Transfer in Evolution (Gophna U, ed.) Springer. ISBN:978-1-4614-7779-2

1.    Williams D, Andam CP, Gogarten JP. 2010. Horizontal gene transfer and the formation of groups of microorganisms. InMolecular Phylogeny of Microorganisms (Oren A, Papke RT, eds.) Caister Academic Press.  ISBN: 978-1-904455-67-7