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A Guide to Biology Resources

Publications from WU Biology Department - 2022

A live version of this list, including links to more information and full-text access, is available on PubMed.

  1. Glenn KC, Silvanovich A, Lee SG, Allen A, Park S, Dunn SE, Kessenich C, Meng C, Vicini JL, Jez JM. Biochemical and clinical studies of putative allergens to assess what distinguishes them from other non-allergenic proteins in the same family. Transgenic Res. 2022 Oct;31(4-5):507-524. doi: 10.1007/s11248-022-00316-8. Epub 2022 Aug 8. PMID: 35939227; PMCID: PMC9489553.

  2. Biswas S, Niedzwiedzki DM, Pakrasi HB. Introduction of cysteine-mediated quenching in the CP43 protein of photosystem II builds resilience to high-light stress in a cyanobacterium. Biochim Biophys Acta Bioenerg. 2022 Oct 1;1863(7):148580. doi: 10.1016/j.bbabio.2022.148580. Epub 2022 May 30. PMID: 35654167.

  3. Liu H. AlphaFold and structural mass spectrometry enable interrogations on the intrinsically disordered regions in cyanobacterial light-harvesting complex phycobilisome. J Mol Biol. 2022 Sep 15:167831. doi: 10.1016/j.jmb.2022.167831. Epub ahead of print. PMID: 36116541.

  4. Niedzwiedzki DM, Magdaong NCM, Su X, Liu H. Biochemical and spectroscopic characterizations of the oligomeric antenna of the coral symbiotic Symbiodiniaceae Fugacium kawagutii. Photosynth Res. 2022 Sep 7. doi: 10.1007/s11120-022-00951-6.

  5. Kim KQ, Zaher HS. Translating while under attack: Plant defense mRNAs find a way. Mol Cell. 2022 Sep 1;82(17):3124-3125. doi: 10.1016/j.molcel.2022.08.009.

  6. Peng X, Liu Y, He W, Hoppe ED, Zhou L, Xin F, Haswell ES, Pickard BG, Genin GM, Lu TJ. Acoustic radiation force on a long cylinder,and potential sound transduction by tomato trichomes. Biophys J. 2022 Aug 30:S0006-3495(22)00707-X. doi: 10.1016/j.bpj.2022.08.038.

  7. Kim KQ, Burgute BD, Tzeng SC, Jing C, Jungers C, Zhang J, Yan LL, Vierstra RD, Djuranovic S, Evans BS, Zaher HS. N1-methylpseudouridine found within COVID-19 mRNA vaccines produces faithful protein products. Cell Rep. 2022 Aug 15:111300. doi: 10.1016/j.celrep.2022.111300.

  8. Báez S, Cayuela L, Macía MJ, Álvarez-Dávila E, Apaza-Quevedo A, Arnelas I, Baca-Cortes N, Bañares de Dios G, Bauters M, Ben Saadi C, Blundo C, Cabrera M, Castaño F, Cayola L, de Aledo JG, Espinosa CI, Fadrique B, Farfán-Rios W, Fuentes A, Garnica-Díaz C, González M, González D, Hensen I, Hurtado AB, Jadán O, Lippok D, Loza MI, Maldonado C, Malizia L, Matas-Granados L, Myers JA, Norden N, Oliveras Menor I, Pierick K, Ramírez-Angulo H, Salgado-Negret B, Schleuning M, Silman M, Solarte-Cruz ME, Tello JS, Verbeeck H, Vilanova E, Weithmann G, Homeier J. FunAndes - A functional trait database of Andean plants. Sci Data. 2022 Aug 20;9(1):511. doi: 10.1038/s41597-022-01626-6. PMID: 35987763.

  9. Fukui K, Arai K, Tanaka Y, Aoi Y, Kukshal V, Jez JM, Kubes MF, Napier R, Zhao Y, Kasahara H, Hayashi KI. Chemical inhibition of the auxin inactivation pathway uncovers the roles of metabolic turnover in auxin homeostasis. Proc Natl Acad Sci U S A. 2022 Aug 9;119(32):e2206869119. doi: 10.1073/pnas.2206869119. Epub 2022 Aug 1. PMID: 35914172.

  10. Pérez-Escobar OA, Tusso S, Przelomska NAS, Wu S, Ryan P, Nesbitt M, Silber MV, Preick M, Fei Z, Hofreiter M, Chomicki G, Renner SS. Genome sequencing of up to 6,000-yr-old Citrullus seeds reveals use of a bitter-fleshed species prior to watermelon domestication. Mol Biol Evol. 2022 Jul 30:msac168. doi: 10.1093/molbev/msac168.

  11. Qian S, Chou CA, Li JS. Deep multi-modal learning for joint linear representation of nonlinear dynamical systems. Sci Rep. 2022 Jul 27;12(1):12807. doi: 10.1038/s41598-022-15669-7. 

  12. Procko C, Radin I, Hou C, Richardson RA, Haswell ES, Chory J. Dynamic calcium signals mediate the feeding response of the carnivorous sundew plant. Proc Natl Acad Sci U S A. 2022 Jul 26;119(30):e2206433119. doi: 10.1073/pnas.2206433119.

  13. Kellogg DR, Levin PA. Nutrient availability as an arbiter of cell size. Trends Cell Biol. 2022 Jul 15:S0962-8924(22)00147-7. doi: 10.1016/j.tcb.2022.06.008.

  14. Kruse LH, Weigle AT, Irfan M, Martínez-Gómez J, Chobirko JD, Schaffer JE, Bennett AA, Specht CD, Jez JM, Shukla D, Moghe GD. Orthology-based analysis helps map evolutionary diversification and predict substrate class use of BAHD acyltransferases. Plant J. 2022 Jul 11. doi: 10.1111/tpj.15902.

  15. Miller K, Strychalski W, Nickaeen M, Carlsson A, Haswell ES. In vitro experiments and kinetic models of Arabidopsis pollen hydration mechanics show that MSL8 is not a simple tension-gated osmoregulator. Curr Biol. 2022 Jul 11;32(13):2921-2934.e3. doi: 10.1016/j.cub.2022.05.033.

  16. Ding YM, Cao Y, Zhang WP, Chen J, Liu J, Li P, Renner SS, Zhang DY, Bai WN. Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication. Genome Biol. 2022 Jul 4;23(1):145. doi: 10.1186/s13059-022-02720-z.

  17. Goldberg RB, Larkins BA, Quatrano RS, Jorgensen RA, Martin C, Merchant SS, Meyers BC, Eckardt NA. Thank you and best wishes to Annette Kessler, Peer Review Manager for The Plant Cell. Plant Cell. 2022 Jul 4;34(7):2568-2569. doi: 10.1093/plcell/koac129.

  18. Basu D, Codjoe JM, Veley KM, Haswell ES. The Mechanosensitive Ion Channel MSL10 Modulates Susceptibility to Pseudomonas syringae in Arabidopsis thaliana. Mol Plant Microbe Interact. 2022 Jul;35(7):567-582. doi: 10.1094/MPMI-08-21-0207-FI.

  19. Mohanasundaram B, Dodds A, Kukshal V, Jez JM, Pandey S. Distribution and the evolutionary history of G-protein components in plant and algal lineages. Plant Physiol. 2022 Jun 27;189(3):1519-1535. doi: 10.1093/plphys/kiac153.

  20. Brock JR, Ritchey MM, Olsen KM. Molecular and archaeological evidence on the geographical origin of domestication for Camelina sativa. Am J Bot. 2022 Jun 18. doi: 10.1002/ajb2.16027.

  21. Davenport EJ, Bose A. Taxonomic Re-Evaluation and Genomic Comparison of Novel Extracellular Electron Uptake-Capable Rhodovulum visakhapatnamenseand Rhodovulum sulfidophilum Isolates. Microorganisms. 2022 Jun 16;10(6):1235. doi: 10.3390/microorganisms10061235.

  22. Kleist TJ, Lin IW, Xu S, Maksaev G, Sadoine M, Haswell ES, Frommer WB, Wudick MM. OzTracs: Optical Osmolality Reporters Engineered from Mechanosensitive Ion Channels. Biomolecules. 2022 Jun 4;12(6):787. doi: 10.3390/biom12060787.

  23. Scott TJ, Queller DC, Strassmann JE. Context dependence in the symbiosis between Dictyostelium discoideum and Paraburkholderia. Evol Lett. 2022 May 2;6(3):245-254. doi: 10.1002/evl3.281.

  24. Damato AR, Herzog ED. Circadian clock synchrony and chronotherapy opportunities in cancer treatment. Semin Cell Dev Biol. 2022 Jun;126:27-36. doi: 10.1016/j.semcdb.2021.07.017.

  25. Pferdehirt L, Damato AR, Dudek M, Meng QJ, Herzog ED, Guilak F. Synthetic gene circuits for preventing disruption of the circadian clock due to interleukin-1-induced inflammation. Sci Adv. 2022 May 27;8(21):eabj8892. doi: 10.1126/sciadv.abj8892.

  26. Innes SG, Santangelo JS, Kooyers NJ, Olsen KM, Johnson MTJ. Evolution in response to climate in the native and introduced ranges of a globally distributed plant. Evolution. 2022 May 19. doi: 10.1111/evo.14514.

  27. Koltz AM, Civitello DJ, Becker DJ, Deem SL, Classen AT, Barton B, Brenn-White M, Johnson ZE, Kutz S, Malishev M, Preston DL, Vannatta JT, Penczykowski RM, Ezenwa VO. Sublethal effects of parasitism on ruminants can have cascading consequences for ecosystems. Proc Natl Acad Sci U S A. 2022 May 17;119(20):e2117381119. doi: 10.1073/pnas.2117381119.

  28. Chung KM, Demianski AJ, Harrison GA, Laurie-Berry N, Mitsuda N, Kunkel BN. Jasmonate Hypersensitive 3 (JAH3) negatively regulates both jasmonate and ethylene-mediated responses in Arabidopsis. J Exp Bot. 2022 May 11:erac208. doi: 10.1093/jxb/erac208.

  29. Renner SS, Müller NA. Sex determination and sex chromosome evolution in land plants. Philos Trans R Soc Lond B Biol Sci. 2022 May 9;377(1850):20210210. doi: 10.1098/rstb.2021.0210.

  30. Postigo JC, Strassmann JE. Animal agriculturalists The Convergent Evolution of Agriculture in Humans and InsectsTed R. Schultz, Richard Gawne, Peter N. Peregrine, Eds. MIT Press, 2022. 338 pp. Science. 2022 Apr 22;376(6591):359. doi: 10.1126/science.abq2570.

  31. Johnson VM, Pakrasi HB. Advances in the Understanding of the Lifecycle of Photosystem II. Microorganisms. 2022 Apr 19;10(5):836. doi: 10.3390/microorganisms10050836.

  32. Kiang NY, Swingley WD, Gautam D, Broddrick JT, Repeta DJ, Stolz JF, Blankenship RE, Wolf BM, Detweiler AM, Miller KA, Schladweiler JJ, Lindeman R, Parenteau MN. Discovery of Chlorophyll d: Isolation and Characterization of a Far-Red Cyanobacterium from the Original Site of Manning and Strain (1943) at Moss Beach, California. Microorganisms. 2022 Apr 14;10(4):819. doi: 10.3390/microorganisms10040819.

  33. Gage JL, Mali S, McLoughlin F, Khaipho-Burch M, Monier B, Bailey-Serres J, Vierstra RD, Buckler ES. Variation in upstream open reading frames contributes to allelic diversity in maize protein abundance. Proc Natl Acad Sci U S A. 2022 Apr 5;119(14):e2112516119. doi: 10.1073/pnas.2112516119.

  34. Wu D, Qiu J, Sun J, Song BK, Olsen KM, Fan L. Weedy rice, a hidden gold mine in the paddy field. Mol Plant. 2022 Apr 4;15(4):566-568. doi: 10.1016/j.molp.2022.01.008.

  35. Jez JM. Connecting primary and specialized metabolism: Amino acid conjugation of phytohormones by GRETCHEN HAGEN 3 (GH3) acyl acid amido synthetases. Curr Opin Plant Biol. 2022 Apr;66:102194. doi: 10.1016/j.pbi.2022.102194.

  36. Landis MJ, Quintero I, Muñoz MM, Zapata F, Donoghue MJ. Phylogenetic inference of where species spread or split across barriers. Proc Natl Acad Sci U S A. 2022 Mar 29;119(13):e2116948119. doi: 10.1073/pnas.2116948119.

  37. Marshall RS, Vierstra RD. A trio of ubiquitin ligases sequentially drives ubiquitylation and autophagic degradation of dysfunctional yeast proteasomes. Cell Rep. 2022 Mar 15;38(11):110535. doi: 10.1016/j.celrep.2022.110535.

  38. Pravder HD, Grabowska D, Roychoudhury K, Zhang B, Frank D, Zakrzewski P, Lenartowska M, Miller KG. PFTAIRE Kinase L63 Interactor 1A (Pif1A Protein) Is Required for Actin Cone Movement during Spermatid Individualization in Drosophila melanogaster. Int J Mol Sci. 2022 Mar 10;23(6):3011. doi: 10.3390/ijms23063011.

  39. Wendt EW, Malabarba LR, Braga MP, Boeger WA, Landis M, Carvalho TP. Phylogeny, species delimitation, and ecological and morphological diversity of Characithecium (Monogenoidea: Dactylogyridae). Parasitology. 2022 Mar 3:1-54. doi: 10.1017/S0031182022000221.

  40. Wang Y, Coomey J, Miller K, Jensen GS, Haswell ES. Interactions between a mechanosensitive channel and cell wall integrity signaling influence pollen germination in Arabidopsis thaliana. J Exp Bot. 2022 Mar 2;73(5):1533-1545. doi: 10.1093/jxb/erab525.

  41. Hanauer DI, Graham MJ, Arnold RJ, Ayuk MA, Balish MF, Beyer AR, Butela KA, Byrum CA, Chia CP, Chung HM, Clase KL, Conant S, Coomans RJ, D'Elia T, Diaz J, Diaz A, Doty JA, Edgington NP, Edwards DC, Eivazova E, Emmons CB, Fast KM, Fisher EJ, Fleischacker CL, Frederick GD, Freise AC, Gainey MD, Gissendanner CR, Golebiewska UP, Guild NA, Hendrickson HL, Herren CD, Hopson-Fernandes MS, Hughes LE, Jacobs-Sera D, Johnson AA, Kirkpatrick BL, Klyczek KK, Koga AP, Kotturi H, LeBlanc-Straceski J, Lee-Soety JY, Leonard JE, Mastropaolo MD, Merkhofer EC, Michael SF, Mitchell JC, Mohan S, Monti DL, Noutsos C, Nsa IY, Peters NT, Plymale R, Pollenz RS, Porter ML, Rinehart CA, Rosas-Acosta G, Ross JF, Rubin MR, Scherer AE, Schroeder SC, Shaffer CD, Sprenkle AB, Sunnen CN, Swerdlow SJ, Tobiason D, Tolsma SS, Tsourkas PK, Ward RE, Ware VC, Warner MH, Washington JM, Westover KM, White SJ, Whitefleet-Smith JL, Williams DC, Wolyniak MJ, Zeilstra-Ryalls JH, Asai DJ, Hatfull GF, Sivanathan V. Instructional Models for Course-Based Research Experience (CRE) Teaching. CBE Life Sci Educ. 2022 Mar;21(1):ar8. doi: 10.1187/cbe.21-03-0057.

  42. Wu D, Shen E, Jiang B, Feng Y, Tang W, Lao S, Jia L, Lin HY, Xie L, Weng X, Dong C, Qian Q, Lin F, Xu H, Lu H, Cutti L, Chen H, Deng S, Guo L, Chuah TS, Song BK, Scarabel L, Qiu J, Zhu QH, Yu Q, Timko MP, Yamaguchi H, Merotto A Jr, Qiu Y, Olsen KM, Fan L, Ye CY. Genomic insights into the evolution of Echinochloa species as weed and orphan crop. Nat Commun. 2022 Feb 3;13(1):689. doi: 10.1038/s41467-022-28359-9.

  43. Lopez-Nieves S, El-Azaz J, Men Y, Holland CK, Feng T, Brockington SF, Jez JM, Maeda HA. Two independently evolved natural mutations additively deregulate TyrA enzymes and boost tyrosine production in planta. Plant J. 2022 Feb;109(4):844-855. doi: 10.1111/tpj.15597.

  44. Radin I, Haswell ES. Looking at mechanobiology through an evolutionary lens. Curr Opin Plant Biol. 2022 Feb;65:102112. doi: 10.1016/j.pbi.2021.102112.

  45. Yang J, Qi Y, Blodgett JAV, Wencewicz TA. Multifunctional P450 Monooxygenase CftA Diversifies the Clifednamide Pool through Tandem C-H Bond Activations. J Nat Prod. 2022 Jan 28;85(1):47-55. doi: 10.1021/acs.jnatprod.1c00606.

  46. Roeder AHK, Otegui MS, Dixit R, Anderson CT, Faulkner C, Zhang Y, Harrison MJ, Kirchhelle C, Goshima G, Coate JE, Doyle JJ, Hamant O, Sugimoto K, Dolan L, Meyer H, Ehrhardt DW, Boudaoud A, Messina C. Fifteen compelling open questions in plant cell biology. Plant Cell. 2022 Jan 20;34(1):72-102. doi: 10.1093/plcell/koab225.

  47. Codjoe JM, Miller K, Haswell ES. Plant cell mechanobiology: Greater than the sum of its parts. Plant Cell. 2022 Jan 20;34(1):129-145. doi: 10.1093/plcell/koab230.

  48. Sharma S, Andrus R, Bergeron Y, Bogdziewicz M, Bragg DC, Brockway D, Cleavitt NL, Courbaud B, Das AJ, Dietze M, Fahey TJ, Franklin JF, Gilbert GS, Greenberg CH, Guo Q, Hille Ris Lambers J, Ibanez I, Johnstone JF, Kilner CL, Knops JMH, Koenig WD, Kunstler G, LaMontagne JM, Macias D, Moran E, Myers JA, Parmenter R, Pearse IS, Poulton-Kamakura R, Redmond MD, Reid CD, Rodman KC, Scher CL, Schlesinger WH, Steele MA, Stephenson NL, Swenson JJ, Swift M, Veblen TT, Whipple AV, Whitham TG, Wion AP, Woodall CW, Zlotin R, Clark JS. North American tree migration paced by climate in the West, lagging in the East. Proc Natl Acad Sci U S A. 2022 Jan 18;119(3):e2116691118. doi: 10.1073/pnas.2116691118.

  49. Brock JR, Mandáková T, McKain M, Lysak MA, Olsen KM. Chloroplast phylogenomics in Camelina (Brassicaceae) reveals multiple origins of polyploid species and the maternal lineage of C. sativa. Hortic Res. 2022 Jan 5;9:uhab050. doi: 10.1093/hr/uhab050.

  50. Sattley WM, Swingley WD, Burchell BM, Dewey ED, Hayward MK, Renbarger TL, Shaffer KN, Stokes LM, Gurbani SA, Kujawa CM, Nuccio DA, Schladweiler J, Touchman JW, Wang-Otomo ZY, Blankenship RE, Madigan MT. Complete genome of the thermophilic purple sulfur Bacterium Thermochromatium tepidum compared to Allochromatium vinosum and other Chromatiaceae. Photosynth Res. 2022 Jan;151(1):125-142. doi: 10.1007/s11120-021-00870-y.

  51. Kim KQ, Zaher HS. Canary in a coal mine: collided ribosomes as sensors of cellular conditions. Trends Biochem Sci. 2022 Jan;47(1):82-97. doi: 10.1016/j.tibs.2021.09.001.

  52. Renner SS, Chmielewski FM. The International Phenological Garden network (1959 to 2021): its 131 gardens, cloned study species, data archiving, and future. Int J Biometeorol. 2022 Jan;66(1):35-43. doi: 10.1007/s00484-021-02185-y.

Last updated: September 26, 2022