My Bibliography

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Steele JF, Kerfeld CA. The Shells of Bacterial Microcompartments. Encyclopedia of Biological Chemistry, 3rd ed.. Forthcoming.

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Ferlez BH, Kirst H, Greber BJ, Nogales E, Sutter M, Kerfeld CA. Heterologous Assembly of Pleomorphic Bacterial Microcompartment Shell Architectures Spanning the Nano- to Microscale. Adv Mater. 2023 Mar 18;:e2212065. doi: 10.1002/adma.202212065. [Epub ahead of print] PubMed PMID: 36932732.

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Sil S, Tilluck RW, Mohan T M N, Leslie CH, Rose JB, Domínguez-Martín MA, Lou W, Kerfeld CA, Beck WF. Excitation energy transfer and vibronic coherence in intact phycobilisomes. Nat Chem. 2022 Nov;14(11):1286-1294. doi: 10.1038/s41557-022-01026-8. Epub 2022 Sep 19. PubMed PMID: 36123451.

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Raba DA, Kerfeld CA. The potential of bacterial microcompartment architectures for phytonanotechnology. Environ Microbiol Rep. 2022 Oct;14(5):700-710. doi: 10.1111/1758-2229.13104. Epub 2022 Jul 19. Review. PubMed PMID: 35855583.

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Domínguez-Martín MA, Sauer PV, Kirst H, Sutter M, Bína D, Greber BJ, Nogales E, Polívka T, Kerfeld CA. Structures of a phycobilisome in light-harvesting and photoprotected states. Nature. 2022 Sep;609(7928):835-845. doi: 10.1038/s41586-022-05156-4. Epub 2022 Aug 31. PubMed PMID: 36045294.

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Rosi M, Russell B, Kristensen LG, Farquhar ER, Jain R, Abel D, Sullivan M, Costello SM, Dominguez-Martin MA, Chen Y, Marqusee S, Petzold CJ, Kerfeld CA, DePonte DP, Farahmand F, Gupta S, Ralston CY. An automated liquid jet for fluorescence dosimetry and microsecond radiolytic labeling of proteins. Commun Biol. 2022 Aug 25;5(1):866. doi: 10.1038/s42003-022-03775-1. PubMed PMID: 36008591; PubMed Central PMCID: PMC9411504.

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Sutter M, Kerfeld CA, Scott KM. Atypical Carboxysome Loci: JEEPs or Junk?. Front Microbiol. 2022;13:872708. doi: 10.3389/fmicb.2022.872708. eCollection 2022. Review. PubMed PMID: 35668770; PubMed Central PMCID: PMC9164163.

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Sutter M, Kerfeld CA. BMC Caller: a webtool to identify and analyze bacterial microcompartment types in sequence data. Biol Direct. 2022 Apr 28;17(1):9. doi: 10.1186/s13062-022-00323-z. PubMed PMID: 35484563; PubMed Central PMCID: PMC9052549.

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Kirst H, Ferlez BH, Lindner SN, Cotton CAR, Bar-Even A, Kerfeld CA. Toward a glycyl radical enzyme containing synthetic bacterial microcompartment to produce pyruvate from formate and acetate. Proc Natl Acad Sci U S A. 2022 Feb 22;119(8). doi: 10.1073/pnas.2116871119. PubMed PMID: 35193962; PubMed Central PMCID: PMC8872734.

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Ralston CY, Kerfeld CA. Integrated Structural Studies for Elucidating Carotenoid-Protein Interactions. Adv Exp Med Biol. 2022;1371:1-10. doi: 10.1007/5584_2020_615. PubMed PMID: 33963527; PubMed Central PMCID: PMC9522475.

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Melnicki MR, Sutter M, Kerfeld CA. Evolutionary relationships among shell proteins of carboxysomes and metabolosomes. Curr Opin Microbiol. 2021 Oct;63:1-9. doi: 10.1016/j.mib.2021.05.011. Epub 2021 Jun 5. Review. PubMed PMID: 34098411; PubMed Central PMCID: PMC8525121.

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Khan T, Kuznetsova V, Dominguez-Martin MA, Kerfeld CA, Polivka T. UV excitation of carotenoid binding proteins OCP and HCP: Excited-state dynamics and product formation. ChemPhotoChem. 2021 September; 6(1):e202100194.

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Gonzalez-Esquer R, Ferlez B, Wijetilleke SM, Kirst H, Lantz AT, Turmo A, Sharkey TD, Kerfeld CA. Validation of an insertion-engineered isoprene synthase as a strategy to functionalize terpene synthases. RSC Advances. 2021 September; 11:29997.

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Gonzalez-Esquer CR, Ferlez B, Weraduwage SM, Kirst H, Lantz AT, Turmo A, Sharkey TD, Kerfeld CA. Validation of an insertion-engineered isoprene synthase as a strategy to functionalize terpene synthases. RSC Adv. 2021 Sep 6;11(48):29997-30005. doi: 10.1039/d1ra05710c. eCollection 2021 Sep 6. PubMed PMID: 35480253; PubMed Central PMCID: PMC9041124.

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Feroz H, Ferlez B, Oh H, Mohammadiarani H, Ren T, Baker CS, Gajewski JP, Lugar DJ, Gaudana SB, Butler P, Hühn J, Lamping M, Parak WJ, Blatt MR, Kerfeld CA, Smirnoff N, Vashisth H, Golbeck JH, Kumar M. Liposome-based measurement of light-driven chloride transport kinetics of halorhodopsin. Biochim Biophys Acta Biomembr. 2021 Aug 1;1863(8):183637. doi: 10.1016/j.bbamem.2021.183637. Epub 2021 Apr 27. PubMed PMID: 33930372.

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Kirst H, Kerfeld CA. Clues to the function of bacterial microcompartments from ancillary genes. Biochem Soc Trans. 2021 Jun 30;49(3):1085-1098. doi: 10.1042/BST20200632. Review. PubMed PMID: 34196367; PubMed Central PMCID: PMC8517908.

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Sutter M, Melnicki MR, Schulz F, Woyke T, Kerfeld CA. A catalog of the diversity and ubiquity of bacterial microcompartments. Nat Commun. 2021 Jun 21;12(1):3809. doi: 10.1038/s41467-021-24126-4. PubMed PMID: 34155212; PubMed Central PMCID: PMC8217296.

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Asija K, Sutter M, Kerfeld CA. A Survey of Bacterial Microcompartment Distribution in the Human Microbiome. Front Microbiol. 2021;12:669024. doi: 10.3389/fmicb.2021.669024. eCollection 2021. Review. PubMed PMID: 34054778; PubMed Central PMCID: PMC8156839.

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Nayfach S, Roux S, Seshadri R, Udwary D, Varghese N, Schulz F, Wu D, Paez-Espino D, Chen IM, Huntemann M, Palaniappan K, Ladau J, Mukherjee S, Reddy TBK, Nielsen T, Kirton E, Faria JP, Edirisinghe JN, Henry CS, Jungbluth SP, Chivian D, Dehal P, Wood-Charlson EM, Arkin AP, Tringe SG, Visel A, Woyke T, Mouncey NJ, Ivanova NN, Kyrpides NC, Eloe-Fadrosh EA. A genomic catalog of Earth's microbiomes. Nat Biotechnol. 2021 Apr;39(4):499-509. doi: 10.1038/s41587-020-0718-6. Epub 2020 Nov 9. PubMed PMID: 33169036; PubMed Central PMCID: PMC8041624.

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Plegaria JS, Yates MD, Glavan SM, Kerfeld CA. Characterization of electrode-immobilized Bacterial Microcompartment Shell Proteins Engineered to Bind Metal Centers. ACS Applied Biomaterials. 2021 January; 1:685.

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Kerfeld CA, Sutter M. Engineered bacterial microcompartments: apps for programming metabolism. Curr Opin Biotechnol. 2020 Oct;65:225-232. doi: 10.1016/j.copbio.2020.05.001. Epub 2020 Jun 15. Review. PubMed PMID: 32554213; PubMed Central PMCID: PMC7719235.

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Dominguez-Martin MA, Hammel M, Gupta S, Lechno-Yossef S, Sutter M, Rosenberg DJ, Chen Y, Petzold CJ, Ralston CY, Polívka T, Kerfeld CA. Structural analysis of a new carotenoid-binding protein: the C-terminal domain homolog of the OCP. Sci Rep. 2020 Sep 23;10(1):15564. doi: 10.1038/s41598-020-72383-y. PubMed PMID: 32968135; PubMed Central PMCID: PMC7512017.

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Scott KM, Harmer TL, Gemmell BJ, Kramer AM, Sutter M, Kerfeld CA, Barber KS, Bari S, Boling JW, Campbell CP, Gallard-Gongora JF, Jackson JK, Lobos A, Mounger JM, Radulovic PW, Sanson JM, Schmid S, Takieddine C, Warlick KF, Whittaker R. Ubiquity and functional uniformity in CO2 concentrating mechanisms in multiple phyla of Bacteria is suggested by a diversity and prevalence of genes encoding candidate dissolved inorganic carbon transporters. FEMS Microbiol Lett. 2020 Jul 1;367(13). doi: 10.1093/femsle/fnaa106. PubMed PMID: 32589217.

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Khan T, Dominguez-Martin MA, Šímová I, Fuciman M, Kerfeld CA, Polívka T. Excited-State Properties of Canthaxanthin in Cyanobacterial Carotenoid-Binding Proteins HCP2 and HCP3. J Phys Chem B. 2020 Jun 18;124(24):4896-4905. doi: 10.1021/acs.jpcb.0c03137. Epub 2020 Jun 3. PubMed PMID: 32437153.

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Rohnke BA, Kerfeld CA, Montgomery BL. Binding Options for the Small Subunit-Like Domain of Cyanobacteria to Rubisco. Front Microbiol. 2020;11:187. doi: 10.3389/fmicb.2020.00187. eCollection 2020. PubMed PMID: 32180764; PubMed Central PMCID: PMC7059596.

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Kuznetsova V, Dominguez-Martin MA, Bao H, Gupta S, Sutter M, Kloz M, Rebarz M, Přeček M, Chen Y, Petzold CJ, Ralston CY, Kerfeld CA, Polívka T. Comparative ultrafast spectroscopy and structural analysis of OCP1 and OCP2 from Tolypothrix. Biochim Biophys Acta Bioenerg. 2020 Feb 1;1861(2):148120. doi: 10.1016/j.bbabio.2019.148120. Epub 2019 Nov 14. PubMed PMID: 31734194; PubMed Central PMCID: PMC6943196.

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Huang J, Ferlez BH, Young EJ, Kerfeld CA, Kramer DM, Ducat DC. Functionalization of Bacterial Microcompartment Shell Proteins With Covalently Attached Heme. Front Bioeng Biotechnol. 2019;7:432. doi: 10.3389/fbioe.2019.00432. eCollection 2019. PubMed PMID: 31993414; PubMed Central PMCID: PMC6962350.

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Young EJ, Sakkos JK, Huang J, Wright JK, Kachel B, Fuentes-Cabrera M, Kerfeld CA, Ducat DC. Visualizing in Vivo Dynamics of Designer Nanoscaffolds. Nano Lett. 2020 Jan 8;20(1):208-217. doi: 10.1021/acs.nanolett.9b03651. Epub 2019 Dec 3. PubMed PMID: 31747755.

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Lechno-Yossef S, Rohnke BA, Belza ACO, Melnicki MR, Montgomery BL, Kerfeld CA. Cyanobacterial carboxysomes contain an unique rubisco-activase-like protein. New Phytol. 2020 Jan;225(2):793-806. doi: 10.1111/nph.16195. Epub 2019 Oct 25. PubMed PMID: 31518434.

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Sutter M, Laughlin TG, Sloan NB, Serwas D, Davies KM, Kerfeld CA. Structure of a Synthetic β-Carboxysome Shell. Plant Physiol. 2019 Nov;181(3):1050-1058. doi: 10.1104/pp.19.00885. Epub 2019 Sep 9. PubMed PMID: 31501298; PubMed Central PMCID: PMC6836842.

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Kirst H, Kerfeld CA. Bacterial microcompartments: catalysis-enhancing metabolic modules for next generation metabolic and biomedical engineering. BMC Biol. 2019 Oct 10;17(1):79. doi: 10.1186/s12915-019-0691-z. Review. PubMed PMID: 31601225; PubMed Central PMCID: PMC6787980.

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Dominguez-Martin MA, Kerfeld CA. Engineering the orange carotenoid protein for applications in synthetic biology. Curr Opin Struct Biol. 2019 Aug;57:110-117. doi: 10.1016/j.sbi.2019.01.023. Epub 2019 Mar 20. Review. PubMed PMID: 30901642.

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Ferlez B, Sutter M, Kerfeld CA. A designed bacterial microcompartment shell with tunable composition and precision cargo loading. Metab Eng. 2019 Jul;54:286-291. doi: 10.1016/j.ymben.2019.04.011. Epub 2019 May 7. PubMed PMID: 31075444; PubMed Central PMCID: PMC6884132.

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Gupta S, Sutter M, Remesh SG, Dominguez-Martin MA, Bao H, Feng XA, Chan LG, Petzold CJ, Kerfeld CA, Ralston CY. X-ray radiolytic labeling reveals the molecular basis of orange carotenoid protein photoprotection and its interactions with fluorescence recovery protein. J Biol Chem. 2019 May 31;294(22):8848-8860. doi: 10.1074/jbc.RA119.007592. Epub 2019 Apr 12. PubMed PMID: 30979724; PubMed Central PMCID: PMC6552439.

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Greber BJ, Sutter M, Kerfeld CA. The Plasticity of Molecular Interactions Governs Bacterial Microcompartment Shell Assembly. Structure. 2019 May 7;27(5):749-763.e4. doi: 10.1016/j.str.2019.01.017. Epub 2019 Mar 1. PubMed PMID: 30833088; PubMed Central PMCID: PMC6506404.

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Dominguez-Martin MA, Polívka T, Sutter M, Ferlez B, Lechno-Yossef S, Montgomery BL, Kerfeld CA. Structural and spectroscopic characterization of HCP2. Biochim Biophys Acta Bioenerg. 2019 May 1;1860(5):414-424. doi: 10.1016/j.bbabio.2019.03.004. Epub 2019 Mar 15. PubMed PMID: 30880081.

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Sutter M, McGuire S, Ferlez B, Kerfeld CA. Structural Characterization of a Synthetic Tandem-Domain Bacterial Microcompartment Shell Protein Capable of Forming Icosahedral Shell Assemblies. ACS Synth Biol. 2019 Apr 19;8(4):668-674. doi: 10.1021/acssynbio.9b00011. Epub 2019 Mar 27. PubMed PMID: 30901520; PubMed Central PMCID: PMC6884138.

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Ferlez B, Sutter M, Kerfeld CA. Glycyl Radical Enzyme-Associated Microcompartments: Redox-Replete Bacterial Organelles. mBio. 2019 Jan 8;10(1). doi: 10.1128/mBio.02327-18. Review. PubMed PMID: 30622187; PubMed Central PMCID: PMC6325248.

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Sommer M, Sutter M, Gupta S, Kirst H, Turmo A, Lechno-Yossef S, Burton RL, Saechao C, Sloan NB, Cheng X, Chan LG, Petzold CJ, Fuentes-Cabrera M, Ralston CY, Kerfeld CA. Heterohexamers Formed by CcmK3 and CcmK4 Increase the Complexity of Beta Carboxysome Shells. Plant Physiol. 2019 Jan;179(1):156-167. doi: 10.1104/pp.18.01190. Epub 2018 Nov 2. PubMed PMID: 30389783; PubMed Central PMCID: PMC6324227.

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Hagen AR, Plegaria JS, Sloan N, Ferlez B, Aussignargues C, Burton R, Kerfeld CA. In Vitro Assembly of Diverse Bacterial Microcompartment Shell Architectures. Nano Lett. 2018 Nov 14;18(11):7030-7037. doi: 10.1021/acs.nanolett.8b02991. Epub 2018 Oct 31. PubMed PMID: 30346795; PubMed Central PMCID: PMC6309364.

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Pande K, Donatelli JJ, Malmerberg E, Foucar L, Poon BK, Sutter M, Botha S, Basu S, Bruce Doak R, Dörner K, Epp SW, Englert L, Fromme R, Hartmann E, Hartmann R, Hauser G, Hattne J, Hosseinizadeh A, Kassemeyer S, Lomb L, Montero SFC, Menzel A, Rolles D, Rudenko A, Seibert MM, Sierra RG, Schwander P, Ourmazd A, Fromme P, Sauter NK, Bogan M, Bozek J, Bostedt C, Schlichting I, Kerfeld CA, Zwart PH. Free-electron laser data for multiple-particle fluctuation scattering analysis. Sci Data. 2018 Oct 2;5:180201. doi: 10.1038/sdata.2018.201. PubMed PMID: 30277481; PubMed Central PMCID: PMC6167951.

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Scott KM, Williams J, Porter CMB, Russel S, Harmer TL, Paul JH, Antonen KM, Bridges MK, Camper GJ, Campla CK, Casella LG, Chase E, Conrad JW, Cruz MC, Dunlap DS, Duran L, Fahsbender EM, Goldsmith DB, Keeley RF, Kondoff MR, Kussy BI, Lane MK, Lawler S, Leigh BA, Lewis C, Lostal LM, Marking D, Mancera PA, McClenthan EC, McIntyre EA, Mine JA, Modi S, Moore BD, Morgan WA, Nelson KM, Nguyen KN, Ogburn N, Parrino DG, Pedapudi AD, Pelham RP, Preece AM, Rampersad EA, Richardson JC, Rodgers CM, Schaffer BL, Sheridan NE, Solone MR, Staley ZR, Tabuchi M, Waide RJ, Wanjugi PW, Young S, Clum A, Daum C, Huntemann M, Ivanova N, Kyrpides N, Mikhailova N, Palaniappan K, Pillay M, Reddy TBK, Shapiro N, Stamatis D, Varghese N, Woyke T, Boden R, Freyermuth SK, Kerfeld CA. Genomes of ubiquitous marine and hypersaline Hydrogenovibrio, Thiomicrorhabdus and Thiomicrospira spp. encode a diversity of mechanisms to sustain chemolithoautotrophy in heterogeneous environments. Environ Microbiol. 2018 Aug;20(8):2686-2708. doi: 10.1111/1462-2920.14090. Epub 2018 Apr 6. PubMed PMID: 29521452.

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Hagen A, Sutter M, Sloan N, Kerfeld CA. Programmed loading and rapid purification of engineered bacterial microcompartment shells. Nat Commun. 2018 Jul 23;9(1):2881. doi: 10.1038/s41467-018-05162-z. PubMed PMID: 30038362; PubMed Central PMCID: PMC6056538.

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Feroz H, Ferlez B, Lefoulon C, Ren T, Baker CS, Gajewski JP, Lugar DJ, Gaudana SB, Butler PJ, Hühn J, Lamping M, Parak WJ, Hibberd JM, Kerfeld CA, Smirnoff N, Blatt MR, Golbeck JH, Kumar M. Light-Driven Chloride Transport Kinetics of Halorhodopsin. Biophys J. 2018 Jul 17;115(2):353-360. doi: 10.1016/j.bpj.2018.06.009. PubMed PMID: 30021110; PubMed Central PMCID: PMC6051019.

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Hackenberg C, Hakanpää J, Cai F, Antonyuk S, Eigner C, Meissner S, Laitaoja M, Jänis J, Kerfeld CA, Dittmann E, Lamzin VS. Structural and functional insights into the unique CBS-CP12 fusion protein family in cyanobacteria. Proc Natl Acad Sci U S A. 2018 Jul 3;115(27):7141-7146. doi: 10.1073/pnas.1806668115. Epub 2018 Jun 18. PubMed PMID: 29915055; PubMed Central PMCID: PMC6142219.

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Plegaria JS, Kerfeld CA. Engineering nanoreactors using bacterial microcompartment architectures. Curr Opin Biotechnol. 2018 Jun;51:1-7. doi: 10.1016/j.copbio.2017.09.005. Epub 2017 Oct 13. Review. PubMed PMID: 29035760; PubMed Central PMCID: PMC5899066.

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Kerfeld CA, Aussignargues C, Zarzycki J, Cai F, Sutter M. Bacterial microcompartments. Nat Rev Microbiol. 2018 May;16(5):277-290. doi: 10.1038/nrmicro.2018.10. Epub 2018 Mar 5. Review. PubMed PMID: 29503457; PubMed Central PMCID: PMC6022854.

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Gurchiek JK, Bao H, Domínguez-Martín MA, McGovern SE, Marquardt CE, Roscioli JD, Ghosh S, Kerfeld CA, Beck WF. Fluorescence and Excited-State Conformational Dynamics of the Orange Carotenoid Protein. J Phys Chem B. 2018 Feb 15;122(6):1792-1800. doi: 10.1021/acs.jpcb.7b09435. Epub 2018 Feb 2. PubMed PMID: 29347821.

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Plegaria JS, Sutter M, Ferlez B, Aussignargues C, Niklas J, Poluektov OG, Fromwiller C, TerAvest M, Utschig LM, Tiede DM, Kerfeld CA. Structural and Functional Characterization of a Short-Chain Flavodoxin Associated with a Noncanonical 1,2-Propanediol Utilization Bacterial Microcompartment. Biochemistry. 2017 Oct 24;56(42):5679-5690. doi: 10.1021/acs.biochem.7b00682. Epub 2017 Oct 10. PubMed PMID: 28956602.

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Turmo A, Gonzalez-Esquer CR, Kerfeld CA. Carboxysomes: metabolic modules for CO2 fixation. FEMS Microbiol Lett. 2017 Oct 2;364(18). doi: 10.1093/femsle/fnx176. Review. PubMed PMID: 28934381.