Publications and Scholarly Contributions of Genomics Core Facility Staff Co-authorship and Facility Acknowledgment
2025
- Satbhai, K.M., Marques, E.S., Ranjan, R., & Timme-Laragy, A.R. (2025). Single-cell RNA sequencing reveals tissue-specific transcriptomic changes induced by perfluorooctanesulfonic acid (PFOS) in larval zebrafish (Danio rerio). Journal of Hazardous Materials, 489, 137515. doi: https://doi.org/10.1016/j.jhazmat.2025.137515
- Kennard, A.S., Velle, K.B., Ranjan, R., Schulz, D., & Fritz-Laylin, L.K. (2025). Tubulin sequence divergence is associated with the use of distinct microtubule regulators. Current Biology, 35(2), 233-248.e238. doi: https://doi.org/10.1016/j.cub.2024.11.022
- Fan, R., Story, G., Kim, J., Li, Z., Bannon, S.T., Cho, H., Ranjan, R., Kim, Y.-C., Layec, G., & Chung, S. (2025). Heat treatment activates futile calcium cycling in brown adipose tissue to modulate energy metabolism and alters gut microbiota in C57BL/6 mice. Acta Physiologica, 241(4), e70025. doi: https://doi.org/10.1111/apha.70025
- Sarsani, V., Aldikacti, B., Zhao, T., He, S., Chien, P., & Flaherty, P. (2025). Discovering genetic modulators of the protein homeostasis system through multilevel analysis. PNAS Nexus, 4(1), pgae574. doi: 10.1093/pnasnexus/pgae574
2024
- Korkmaz, Ü.R., Cetiner, O.F., Rani, A., Ranjan, R., & Öztürk, A.B. (2024). Respiratory Microbiome. In H. Yüksel, O. Yilmaz, N. Bayar Muluk & C. M. Myer (Eds.), Pediatric Airway Diseases (pp. 97-112). Cham: Springer Nature Switzerland.
- Ranjan, R. (2024, 10/24/2024). Invited Talk: Streamlined for speed: NEBNext UltraExpress for DNA and RNA library prep. Paper presented at the NEBNext Inspirations User Group Meeting, Kimpton Marlowe, Cambridge, MA, USA
- Mogus, J.P., Marin, M., Arowolo, O., Salemme, V., & Suvorov, A. (2024). Developmental exposures to common environmental pollutants result in long-term Reprogramming of hypothalamic-pituitary axis in mice. Environmental Pollution, 361, 124890. doi: https://doi.org/10.1016/j.envpol.2024.124890
- Zeng, M., Sarker, B., Rondthaler, S.N., Vu, V., & Andrews, L.B. (2024). Identifying LasR Quorum Sensors with Improved Signal Specificity by Mapping the Sequence–Function Landscape. ACS Synthetic Biology, 13(2), 568-589. doi: 10.1021/acssynbio.3c00543
- Rondthaler, S.N., Sarker, B., Howitz, N., Shah, I., & Andrews, L.B. (2024). Toolbox of Characterized Genetic Parts for Staphylococcus aureus. ACS Synthetic Biology, 13(1), 103-118. doi: 10.1021/acssynbio.3c00325
- Sarsani, V.A.-O., Aldikacti, B., Zhao, T., He, S., Chien, P., & Flaherty, P.A.-O. (2024). Discovering Genetic Modulators of the Protein Homeostasis System through Multilevel Analysis. LID - 2024.02.26.582154 [pii] LID - 10.1101/2024.02.26.582154 [doi]. (2692-8205 (Electronic)).
- He, X.D., Taylor, L.F., Miao, X., Shi, Y., Lin, X., Yang, Z., Liu, X., Miao, Y.-L., Alfandari, D., Cui, W., et al. (2024). Overlapping peri-implantation phenotypes of ZNHIT1 and ZNHIT2 despite distinct functions during early mouse development. Biology of Reproduction, ioae128. doi: 10.1093/biolre/ioae128
- Ramirez, M.D., Bui, T.N., & Katz, P.S. (2024). Cellular-resolution gene expression mapping reveals organization in the head ganglia of the gastropod, Berghia stephanieae. Journal of Comparative Neurology, 532(6), e25628. doi: https://doi.org/10.1002/cne.25628
- Zintel, T.M., Pizzollo, J., Claypool, C.G., & Babbitt, C.C. (2024). Astrocytes Drive Divergent Metabolic Gene Expression in Humans and Chimpanzees. Genome Biology and Evolution, 16(1), evad239. doi: 10.1093/gbe/evad239
- Rickelton, K., Zintel, T.M., Pizzollo, J., Miller, E., Ely, J.J., Raghanti, M.A., Hopkins, W.D., Hof, P.R., Sherwood, C.C., Bauernfeind, A.L., et al. (2024). Tempo and mode of gene expression evolution in the brain across primates. eLife, 13, e70276. doi: 10.7554/eLife.70276
- He, X.D., Phillips, S., Hioki, K., Majhi, P.D., Babbitt, C., Tremblay, K.D., Pobezinsky, L.A., & Mager, J. (2024). TATA-binding associated factors have distinct roles during early mammalian development. Developmental Biology, 511, 53-62. doi: https://doi.org/10.1016/j.ydbio.2024.04.002
- Satbhai K, Marques E, Ranjan R, Timme-Laragy A. 2024. Single-cell RNA sequencing to evaluate tissue-specific transcriptomic changes induced by perfluorooctanesulfonic acid (PFOS) in the embryonic zebrafish (Danio rerio). The Toxicologist, a Supplement to Toxicological Sciences, Abstract #4087.
- Pavon, N., Diep, K., Yang, F., Sebastian, R., Martinez-Martin, B., Ranjan, R., Sun, Y., & Pak, C. (2024). Patterning ganglionic eminences in developing human brain organoids using a morphogen-gradient-inducing device. Cell Reports Methods, 4(1), 100689. doi: https://doi.org/10.1016/j.crmeth.2023.100689
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10831957/ - McCullough AK, Ranjan R. Do kinematic features of human movement correlate with telomere length? A pilot study. Poster No.42, presented at the Translational Science 2024 Conference, April 3 – 5, 2024, Las Vegas, USA, organized by Association for Clinical and Translational Science, Washington, DC.
- Kennard, A.S., Velle, K.B., Ranjan, R., Schulz, D., & Fritz-Laylin, L.K. (2024). An internally controlled system to study microtubule network diversification links tubulin evolution to the use of distinct microtubule regulators. bioRxiv, 2024.2001.2008.573270. doi: 10.1101/2024.01.08.573270
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10802493/ - Bechtold Emily, K., Wanek, W., Nuesslein, B., DaCosta, M., & Nüsslein, K. (2024). Successional changes in bacterial phyllosphere communities are plant-host species dependent. Applied and Environmental Microbiology, 90(3), e01750-01723. doi: 10.1128/aem.01750-23
- Kennard, A.S., Velle, K.B., Ranjan, R., Schulz, D., & Fritz-Laylin, L.K. (2024). An internally controlled system to study microtubule network diversification links tubulin evolution to the use of distinct microtubule regulators. bioRxiv, 2024.2001.2008.573270. doi: 10.1101/2024.01.08.573270
- Ranjan R. Genomics Resource Laboratory, UMass Amherst Genomics Core Facility: Capabilities and Resources, at UMass Interdisciplinary Neurosciences Conference 2024. Held on 05/30/2024.
- Ranjan R. User Experience: NEBNext UltraExpress RNA Library Prep Kit, hosted by New England Biolabs, at Advances in Genome Biology and Technology (AGBT) 2024, General Meeting, Orlando, FL, USA.
- Srinivasan, S., He, X., Mirza, S., & Mager, J. (2024). Exosome complex components 1 and 2 are vital for early mammalian development. Gene Expression Patterns, 51, 119346. doi: 10.1016/j.gep.2023.119346
https://pubmed.ncbi.nlm.nih.gov/37940010/
2023
- Jessica, A.G., Robin, A.R., Neville, F.T., Rose, A.F., Seth, R.B., Kevin, M., Mark Allan, C.J., Carl, W., Park, M., Grant, O.B., et al. (2023). A chromosome-level genome for the nudibranch gastropod Berghia stephanieae helps parse clade-specific gene expression in novel and conserved phenotypes. bioRxiv, 2023.2008.2004.552006. doi: 10.1101/2023.08.04.552006
- Hioki, K.A., Ryan, D.J., Thesmar, I., Lynch, A.C., Pobezinsky, L.A., & Pobezinskaya, E.L. (2023). The mosquito effect: regulatory and effector T cells acquire cytoplasmic material from tumor cells through intercellular transfer. Frontiers in Immunology, 14.
- Shinfuku, M., S., Domeignoz-Horta, L., A., Choudoir, M., J., Frey, S., D., & DeAngelis, K., M. (2023). Season, not long-term warming, affects the relationship between ecosystem function and microbial diversity. bioRxiv, 2023.2008.2014.553264. doi: 10.1101/2023.08.14.553264
https://www.biorxiv.org/content/10.1101/2023.08.14.553264v1 - Kado, T., Akbary, Z., Motooka, D., Sparks, I.L., Melzer, E.S., Nakamura, S., Rojas, E.R., Morita, Y.S., & Siegrist, M.S. (2023). A cell wall synthase accelerates plasma membrane partitioning in mycobacteria. Elife, 12. doi: 10.7554/eLife.81924.
https://pubmed.ncbi.nlm.nih.gov/37665120/ - Li, S., You, X., Rani, A., Özcan, E., & Sela, D.A. (2023). Bifidobacterium infantis utilizes N-acetylglucosamine-containing human milk oligosaccharides as a nitrogen source. Gut Microbes, 15(2), 2244721. doi: 10.1080/19490976.2023.2244721
https://pubmed.ncbi.nlm.nih.gov/37609905/ - Satbhai, K., Marques, E., Ranjan, R., & Timme-Laragy, A. (2023). Single-cell RNA sequencing to evaluate tissue-specific transcriptomic changes induced by perfluorooctanesulfonic acid (PFOS) in the embryonic zebrafish (Danio rerio). Paper presented at the Gordon Research Conference - Cellular and Molecular Mechanisms of Toxicity.
https://www.grc.org/cellular-and-molecular-mechanisms-of-toxicity-confer... - Leonard, E.R., Marques, E.S., Roy, M.A., Conlin, S.M., Ranjan, R., & Timme-Laragy, A.R. (2023). Dietary exposure to the food preservative tert-Butylhydroquinone (tBHQ) impairs zebrafish (Danio rerio) survival, growth, organ development, and gene expression in Nrf2a-dependent and independent ways. Food and Chemical Toxicology, 176, 113788. doi: 10.1016/j.fct.2023.113788
https://doi.org/10.1016/j.fct.2023.113788 - Dedon, L.R., Hilliard, M.A., Rani, A., Daza-Merchan, Z.T., Story, G., Briere, C.E., & Sela, D.A. (2023). Fucosylated Human Milk Oligosaccharides Drive Structure-Specific Syntrophy between Bifidobacterium infantis and Eubacterium hallii within a Modeled Infant Gut Microbiome. Molecular Nutrition & Food Research, 67(11), e2200851. doi: 10.1002/mnfr.202200851
https://pubmed.ncbi.nlm.nih.gov/36938958/ - Bermudez, Y., Miles, J., & Muller, M. (2023). Nonstructural protein 1 widespread RNA decay phenotype varies among coronaviruses. iScience, 26(1), 105887. doi: 10.1016/j.isci.2022.105887
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9794394/ - You, X., Rani, A., Özcan, E., Lyu, Y., & Sela, D.A. (2023). Bifidobacterium longum subsp. infantis utilizes human milk urea to recycle nitrogen within the infant gut microbiome. Gut Microbes, 15(1), 2192546. doi: 10.1080/19490976.2023.2192546
https://pubmed.ncbi.nlm.nih.gov/36967532/ - Edwards, M., Lam, S., Ranjan, R., Pereira, M., Babbitt, C., & Lacreuse, A. (2023). Letrozole treatment alters hippocampal gene expression in common marmosets (Callithrix jacchus). Hormones and Behavior, 147, 105281. doi: 10.1016/j.yhbeh.2022.105281
https://pubmed.ncbi.nlm.nih.gov/36434852/ - Kim, M., Swenson, J., McLoughlin, F., & Vierling, E. (2023). Mutation of the polyadenylation complex subunit CstF77 reveals that mRNA 3' end formation and HSP101 levels are critical for a robust heat stress response. Plant Cell, 35(2), 924-941. doi: 10.1093/plcell/koac351
https://academic.oup.com/plcell/article/35/2/924/6874267 - Rani, A., Ranjan, R., Bonina, S.M.C., Izadmehr, M., Giesy, J.P., Li, A., Sturchio, N.C., & Rockne, K.J. (2023). Aqueous Geochemical Controls on the Sestonic Microbial Community in Lakes Michigan and Superior. Microorganisms, 11(2). doi: 10.3390/microorganisms11020504
https://pubmed.ncbi.nlm.nih.gov/36838469/ - Prithviraj, M., Kado, T., Mayfield, J.A., Young, D.C., Huang, A.D., Motooka, D., Nakamura, S., Siegrist, M.S., Moody, D.B., & Morita, Y.S. (2023). Tuberculostearic Acid Controls Mycobacterial Membrane Compartmentalization. mBio, 14(2), e0339622. doi: 10.1128/mbio.03396-22
https://pubmed.ncbi.nlm.nih.gov/36976029/ - Ranjan, R. (2023). Poster No.25. Genomics Resource Laboratory, UMass Amherst: Capabilities and Resources. Paper presented at the 2023 Interdisciplinary Neurosciences Conference.
https://sites.google.com/view/umassneuroscience2023/abstracts2023 - Pak, C., Pavon, N., Diep, K., Yang, F., Sebastian, R., Martinez-Martin, B., Ranjan, R., & Sun, Y. (2023). Patterning ganglionic eminences in developing human brain organoids using morphogen gradient inducing device. bioRxiv, 2023.2006.2020.545705. doi: 10.1101/2023.06.20.545705
https://www.biorxiv.org/content/10.1101/2023.06.20.545705v1 - Barnett, J.R., Sharma, R., Buonauro, G., Gillis, I.M., Rashidzade, M., & Caicedo, A.L. (2023). Evidence of fruit syndromes in the recently diverged wild tomato clade opens new possibilities for the study of fleshy fruit evolution. Plants, People, Planet. doi: 10.1002/ppp3.10399
https://nph.onlinelibrary.wiley.com/doi/10.1002/ppp3.10399 - Velle, K.B., Kennard, A.S., Trupinić, M., Ivec, A., Swafford, A.J.M., Nolton, E., Rice, L.M., Tolić, I.M., Fritz-Laylin, L.K., & Wadsworth, P. (2022). Naegleria's mitotic spindles are built from unique tubulins and highlight core spindle features. Current Biology, 32(6), 1247-1261.e1246. doi: 10.1016/j.cub.2022.01.034
https://www.sciencedirect.com/science/article/pii/S0960982222000458?via%...
2022
- Pizzollo, J., Zintel, T.M., & Babbitt, C.C. (2022). Differentially Active and Conserved Neural Enhancers Define Two Forms of Adaptive Noncoding Evolution in Humans. Genome Biology and Evolution, 14(8), evac108. doi: 10.1093/gbe/evac108
- Mahmoud, S.A., Aldikacti, B., & Chien, P. (2022). ATP hydrolysis tunes specificity of a AAA+ protease. Cell Reports, 40(12), 111405. doi: https://doi.org/10.1016/j.celrep.2022.111405
Petreš, M., Hrustić, J., Vučinić, N., Ma, L.-J., Ayhan, Dilay H., & Grahovac, M. (2022). Genome Sequence Resource of Fusarium graminearum TaB10 and Fusarium avenaceum KA13, Causal Agents of Stored Apple Rot. Molecular Plant-Microbe Interactions®, 36(1), 64-67. doi: 10.1094/MPMI-03-22-0069-A - Bechtold, E. (2022). Community Assembly and Stress Response of Grassland Phyllosphere Bacteria. (Doctor of Philosophy (PhD)), The University of Massachusetts Amherst, https://hdl.handle.net/20.500.14394/18795.
- Hila, S., Mallory, J.C., Vedang, D., John Stoffolano, Jr., & Kristen, M.D. (2022). Chitosan diet alters the microbiome of adult house flies. bioRxiv, 2022.2008.2031.502951. doi: 10.1101/2022.08.31.502951
https://www.biorxiv.org/content/10.1101/2022.08.31.502951v1 - Sarsani, V., Aldikacti, B., He, S., Zeinert, R., Chien, P., & Flaherty, P. (2022). Model-based identification of conditionally-essential genes from transposon-insertion sequencing data. PLoS Computational Biology, 18(3), e1009273. doi: 10.1371/journal.pcbi.1009273
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1... - Ranjan, R. (2022). Poster No.1. UMass Amherst Genomics Core Facility: Capabilities and Resources. Paper presented at the UMass 2022 Interdisciplinary Neurosciences Conference (05/26/2022).
https://sites.google.com/view/umass-neurosciences/abstracts - Kitrinos, C., Bell, R.B., Bradley, B.J., & Kamilar, J.M. (2022). Hair Microbiome Diversity within and across Primate Species. mSystems, 7(4), e0047822. doi: 10.1128/msystems.00478-22
https://pubmed.ncbi.nlm.nih.gov/35876529/ - Roy, M.A., Gridley, C.K., Li, S., Park, Y., & Timme-Laragy, A.R. (2022). Nrf2a dependent and independent effects of early life exposure to 3,3'-dichlorobiphenyl (PCB-11) in zebrafish (Danio rerio). Aquatic Toxicology, 249, 106219. doi: 10.1016/j.aquatox.2022.106219
https://pubmed.ncbi.nlm.nih.gov/35700651/ - Moore, K.J.M., Cahill, J., Aidelberg, G., Aronoff, R., Bektaş, A., Bezdan, D., Butler, D.J., Chittur, S.V., Codyre, M., Federici, F., Ranjan, R, et al. (2021). Loop-Mediated Isothermal Amplification Detection of SARS-CoV-2 and Myriad Other Applications. Journal of Biomolecular Techniques, 32(3), 228-275. doi: 10.7171/jbt.21-3203-017
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8802757/
2021
- Atwood, T.P., Radik, M., & Seifried, R.M. (2021). Supporting Big Data Research at the University of Massachusetts Amherst. University Libraries Working Papers and Reports. doi: https://doi.org/10.7275/jsr0-2n21
- Bechtold Emily, K., Ryan, S., Moughan Sarah, E., Ranjan, R., & Nüsslein, K. (2021). Phyllosphere Community Assembly and Response to Drought Stress on Common Tropical and Temperate Forage Grasses. Applied and Environmental Microbiology, 87(17), e00895-00821. doi: 10.1128/AEM.00895-21
- Özcan, E., Rozycki, M.R., & Sela, D.A. (2021). Cranberry Proanthocyanidins and Dietary Oligosaccharides Synergistically Modulate Lactobacillus plantarum Physiology. Microorganisms, 9(3). doi: 10.3390/microorganisms9030656
https://www.mdpi.com/2076-2607/9/3/656/htm - Öztürk, A.B., Ranjan, R., Rani, A., Yazıcı, D., & Bavbek, S. (2021). Microbiota - The Unseen Players in Adult Asthmatic Airways. Turk Thorac J, 22(1), 75-82. doi: 10.5152/TurkThoracJ.2020.19085
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7919442/ - Kim, M., Schulz, V., Brings, L., Schoeller, T., Kühn, K., & Vierling, E. (2021). mTERF18 and ATAD3 are required for mitochondrial nucleoid structure and their disruption confers heat tolerance in Arabidopsis thaliana. New Phytologist, 232(5), 2026-2042. doi: 10.1111/nph.17717
https://pubmed.ncbi.nlm.nih.gov/34482561/ - Schwartz, A.D., Adusei, A., Tsegaye, S., Moskaluk, C.A., Schneider, S.S., Platt, M.O., Seifu, D., Peyton, S.R., & Babbitt, C.C. (2021). Genetic Mutations Associated with Hormone-Positive Breast Cancer in a Small Cohort of Ethiopian Women. Annals of Biomedical Engineering, 49(8), 1900-1908. doi: 10.1007/s10439-021-02800-4
https://link.springer.com/article/10.1007%2Fs10439-021-02800-4 - Nie, Y., Nirujogi, T.S., Ranjan, R., Reader, B.F., Chung, S., Ballinger, M.N., Englert, J.A., Christman, J.W., & Karpurapu, M. (2021). PolyADP-Ribosylation of NFATc3 and NF-κB Transcription Factors Modulate Macrophage Inflammatory Gene Expression in LPS-Induced Acute Lung Injury. Journal of Innate Immunity, 13(2), 83-93. doi: 10.1159/000510269
https://pubmed.ncbi.nlm.nih.gov/33045713/ - Minsoo, K., John, S., Fionn, M., & Elizabeth, V. (2021). A temperature sensitive mutation in the CstF77 subunit of the polyadenylation complex reveals the critical function of mRNA 3’ end formation for a robust heat stress response in plants. bioRxiv, 2021.2010.2031.466691. doi: 10.1101/2021.10.31.466691
https://www.biorxiv.org/content/10.1101/2021.10.31.466691v1 - Kimura, Y., Ranjan, R., Raghuraman, N., & Srimathveeravalli, G. (2021). Abstract No. 85. Electric pulse assisted transcriptomic and proteomic profiling of tumors. Journal of Vascular and Interventional Radiology, 32(5), Supplement, S37-S38. doi: 10.1016/j.jvir.2021.03.509
https://www.jvir.org/article/S1051-0443(21)00898-8/fulltext - Reinhart, P., Ranjan, R., Moineau, A., Poulin, E., Ngom, P.T., Burnside, A., Rinaldi, A., & Johari, V. (2021). Abstract No. 94. Validation study: Evaluation of dry anterior nasal swabs for collection and transport of specimens to the testing laboratory for the SARS-CoV-2-RT-PCR (COVID-19) assay. Archives of Pathology and Laboratory Medicine, 145(9), e2-e194. doi: 10.5858/arpa.2021-0267-AB
https://meridian.allenpress.com/aplm/article/145/9/e2/469635/Abstracts-a... - Katrina, B.V., Monika, T., Arian, I., Andrew, S., Emily, N., Luke, R., Iva, M.T., Lillian, K.F.-L., & Patricia, W. (2021). Naegleria’s mitotic spindles are built from unique tubulins and highlight core spindle features. bioRxiv, 2021.2002.2023.432318. doi: 10.1101/2021.02.23.432318
https://www.biorxiv.org/content/10.1101/2021.02.23.432318v1.full.pdf
2020
- Zeinert, R.D., Baniasadi, H., Tu, B.P., & Chien, P. (2020). The Lon Protease Links Nucleotide Metabolism with Proteotoxic Stress. Molecular Cell, 79(5), 758-767.e756. doi: https://doi.org/10.1016/j.molcel.2020.07.011
- Ranjan, R. (2020). BREAKOUTS SESSION (10:00-11:00 AM, Core facility pandemic perspectives and preparations). Setting up a COVID-19 Testing Lab in Challenging Times. Paper presented at the The Northeast Regional Laboratory Staff & Core Directors (NERLSCD) 2020 Conference, ABRF, Virtual.
https://nerlscd.abrf.org/program-2020/ - Abraham-Juárez, M.J., Schrager-Lavelle, A., Man, J., Whipple, C., Handakumbura, P., Babbitt, C., & Bartlett, M. (2020). Evolutionary Variation in MADS Box Dimerization Affects Floral Development and Protein Abundance in Maize. Plant Cell, 32(11), 3408-3424. doi: 10.1105/tpc.20.00300
https://pubmed.ncbi.nlm.nih.gov/32873631/ - Adams, B.M., Canniff, N.P., Guay, K.P., Larsen, I.S.B., & Hebert, D.N. (2020). Quantitative glycoproteomics reveals cellular substrate selectivity of the ER protein quality control sensors UGGT1 and UGGT2. Elife, 9. doi: 10.7554/eLife.63997
https://elifesciences.org/articles/63997 - Ranjan, R., Green, S.J., Mason, C., Butler, D., Vinas, N.R., Hsu, C.Y., Wagner, N., Thomas, W.K., Simpson, S., Bivens, N., et al. (2020). Methods to preserve individual bacteria and microbiome samples for nucleic acid analyses without altering cellular structure or integrity. Journal of Biomolecular Techniques, 31(Suppl), S16.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7424855/ - Metwally, A.A., Ascoli, C., Turturice, B., Rani, A., Ranjan, R., Chen, Y., Schott, C., Faro, A., Ferkol, T.W., Finn, P.W., et al. (2020). Pediatric lung transplantation: Dynamics of the microbiome and bronchiolitis obliterans in cystic fibrosis. Journal of Heart and Lung Transplantation, 39(8), 824-834. doi: 10.1016/j.healun.2020.04.016
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7437357/ - Yu, H., Ayhan, D.H., Diener, A.C., & Ma, L.J. (2020). Genome Sequence of Fusarium oxysporum f. sp. matthiolae, a Brassicaceae Pathogen. Molecular Plant-Microbe Interactions, 33(4), 569-572. doi: 10.1094/mpmi-11-19-0324-a
https://www.ncbi.nlm.nih.gov/pubmed/31967942 - Zhang, Y., Yang, H., Turra, D., Zhou, S., Ayhan, D.H., DeIulio, G.A., Guo, L., Broz, K., Wiederhold, N., Coleman, J.J., et al. (2020). The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes. Communications Biology, 3(1), 50. doi: 10.1038/s42003-020-0770-2
https://www.nature.com/articles/s42003-020-0770-2?proof=true - Woldemeskel, S.A., Daitch, A.K., Alvarez, L., Panis, G., Zeinert, R., Gonzalez, D., Smith, E., Collier, J., Chien, P., Cava, F., et al. (2020). The conserved transcriptional regulator CdnL is required for metabolic homeostasis and morphogenesis in Caulobacter. PLoS Genetics, 16(1), e1008591. doi: 10.1371/journal.pgen.1008591
https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1... - Rani, A., Ranjan, R., Metwally, A.A., Brennan, D.C., Finn, P.W., & Perkins, D.L. (2020). Abundance of Multidrug Resistance Efflux Pumps in the Urinary Metagenome of Kidney Transplant Patients. BioMed Research International, 2020, 5421269. doi: 10.1155/2020/5421269
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7093903/ - Dedon, L.R., Özcan, E., Rani, A., & Sela, D.A. (2020). Bifidobacterium infantis Metabolizes 2'Fucosyllactose-Derived and Free Fucose Through a Common Catabolic Pathway Resulting in 1,2-Propanediol Secretion. Frontiers in Nutrition, 7, 583397. doi: 10.3389/fnut.2020.583397
https://www.frontiersin.org/articles/10.3389/fnut.2020.583397/full#T2 - Albert, K., Rani, A., & Sela, D.A. (2020). Comparative Pangenomics of the Mammalian Gut Commensal Bifidobacterium longum. Microorganisms, 8(1). doi: 10.3390/microorganisms8010007
https://www.mdpi.com/2076-2607/8/1/7
2019
- Roy, M.A., Sant, K.E., Venezia, O.L., Shipman, A.B., McCormick, S.D., Saktrakulkla, P., Hornbuckle, K.C., & Timme-Laragy, A.R. (2019). The emerging contaminant 3,3′-dichlorobiphenyl (PCB-11) impedes Ahr activation and Cyp1a activity to modify embryotoxicity of Ahr ligands in the zebrafish embryo model (Danio rerio). Environmental Pollution, 254, 113027.https://pubmed.ncbi.nlm.nih.gov/31421573/
https://pubmed.ncbi.nlm.nih.gov/31421573/ - Sant, K.E., Venezia, O.L., Sinno, P.P., & Timme-Laragy, A.R. (2019). Perfluorobutanesulfonic Acid Disrupts Pancreatic Organogenesis and Regulation of Lipid Metabolism in the Zebrafish, Danio rerio. Toxicological Sciences, 167(1), 258-268. doi: 10.1093/toxsci/kfy237
https://academic.oup.com/toxsci/article/167/1/258/5098224
2018
- Ranjan, R., Yadav, M.K., Suneja, G., & Sharma, R. (2018). Discovery of a diverse set of esterases from hot spring microbial mat and sea sediment metagenomes. International Journal of Biological Macromolecules, 119, 572-581. doi: 10.1016/j.ijbiomac.2018.07.170
https://pubmed.ncbi.nlm.nih.gov/30059741/ - Abrha, A., & Suvorov, A. (2018). Transcriptomic Analysis of Gonadal Adipose Tissue in Male Mice Exposed Perinatally to 2,2',4,4'-Tetrabromodiphenyl Ether (BDE-47). Toxics, 6(2). doi: 10.3390/toxics6020021
https://pubmed.ncbi.nlm.nih.gov/29596321/ - Ranjan, R., Rani, A., Finn, P.W., & Perkins, D.L. (2018). Multiomic Strategies Reveal Diversity and Important Functional Aspects of Human Gut Microbiome. BioMed Research International, 2018, 6074918. doi: 10.1155/2018/6074918
https://pubmed.ncbi.nlm.nih.gov/30584534/ - Khalil, A., Cevik, S.E., Hung, S., Kolla, S., Roy, M.A., & Suvorov, A. (2018). Developmental Exposure to 2,2′,4,4′-Tetrabromodiphenyl Ether Permanently Alters Blood-Liver Balance of Lipids in Male Mice. Frontiers in Endocrinology, 9.
https://www.frontiersin.org/articles/10.3389/fendo.2018.00548/full - Einson Jonah, E., Rani, A., You, X., Rodriguez Allison, A., Randell Clifton, L., Barnaba, T., Mammel Mark, K., Kotewicz Michael, L., Elkins Christopher, A., & Sela David, A. (2018). A Vegetable Fermentation Facility Hosts Distinct Microbiomes Reflecting the Production Environment. Applied and Environmental Microbiology, 84(22), e01680-01618. doi: 10.1128/AEM.01680-18
https://pubmed.ncbi.nlm.nih.gov/30171008/
2017
- Zhanayeva, A. (2017). Comparative Transcriptome Analysis of Wild Tomato Species during Fruit Development. (MASTER OF SCIENCE), University of Massachusetts Amherst.