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Brent Nielsen

Professor
Microbiology & Molecular Biology

3130 LSB
Provo, UT 84602

(801) 422-1102

Biography

  • B.S., Brigham Young Univ., 1980
  • Ph.D., Oregon State Univ., 1985
  • Postdoctoral, Univ. California, Irvine, 1985-1988
  • Asst. Prof.-Professor, Auburn Univ., 1988-2000
  • Professor, Brigham Young Univ., 2000-present

Teaching Interests

  • Molecular biology (general and advanced)
  • RNA-mediated gene regulation
  • Philosophy of biology

Research Interests

  • Plant molecular biology
  • Particularly DNA replication and recombination in chloroplasts and mitochondria
  • Proteomics and transcriptomics of halophytes
  • Microbiomes of halophytes

Memberships

  • American Society for Biochemistry and Molecular Biology, 1991-Present
  • American Society of Plant Biologists, 1989-Present

Courses Taught

Winter 2019

  • MMBIO 240: Molecular Biology Section 002
  • MMBIO 294R: Mentored Research Section 013
  • MMBIO 390R: Readings in Molecular Biology Section 001
  • MMBIO 441: Adv Molecular Biology Section 001
  • MMBIO 494R: Advanced Mentored Research Section 013
  • MMBIO 512: Gene Regulation Section 001
  • MMBIO 695R: Research Section 012
  • MMBIO 799R: Dissertation Section 012

Fall 2018

  • MMBIO 240: Molecular Biology Section 002, 003
  • MMBIO 494R: Advanced Mentored Research Section 013, 023
  • MMBIO 799R: Dissertation Section 013

Summer 2018

  • MMBIO 494R: Mentored Research Section 012

Spring 2018

  • MMBIO 494R: Mentored Research Section 012
  • MMBIO 799R: Dissertation Section 012

Publications

Journal Articles

Morley S, Peralta-Castro A, Brieba LG, Miller J, Ong K, Ridge PG, Oliphant A, Aldous S, Nielsen B. 2019. Arabidopsis thaliana organelles mimic the T7 phage DNA replisome with specific interactions between Twinkle protein and DNA polymerases Pol1A and Pol1B. BMC Plant Biology. 19:16 pages.

Shoukat E, Abideen Z, Ahmed MZ, Gulzar S, Nielsen B. 2019. Changes in growth and photosynthesis linked with intensity and duration of salinity in Phragmites karka: A giant grass. Environmental and Experimental Botany. 162:504-514.

Chi P, Huang W, Chiu H, Li J, Nielsen B, Liu H. 2018. Avian reovirus σA-modulated suppression of lactate dehydrogenase and upregulation of glutaminolysis and the mTOC1/eIF4E/HIF-1α pathway to enhance glycolysis and the TCA cycle for virus replication. Cellular Microbiology. 20:18.

Chiu HC, Huang WR, Liao TL, Chi PI, Nielsen B, Liu JH, Liu HJ. 2018. Mechanistic insights into avian reovirus p17-modulated interaction of p53 and cyclin H and suppression of cell-cycle cyclin-dependent kinase activity and complex formation of CDK/cyclin enhancing virus replication. Journal of Biological Chemistry. 293(32):12542-12562.

Weber KS, Bridgewater LC, Jensen JL, Breakwell DP, Nielsen B, Johnson SM. 2018. Personal microbiome analysis improves student engagement and interest in Immunology, Molecular Biology, and Genomics undergraduate courses. PLoS One. 13(4):20 pages.

Asrar H, Hussain T, Gul B, Khan MA, Nielsen B. 2018. Differential protein expression reveals salt tolerance mechanism of Desmostachya bipinnata at moderate and high levels of salinity. Functional Plant Biology. 45(8):793-812.

Huang W, Chi P, Chiu H, Hsu J, Nielsen B, Liao T, Liu H. 2017. Avian reovirus p17 and A act cooperatively to downregulate Akt by suppressing mTORC2 and CDK2/cyclin A2 and upregulating proteasome PSMB6. Scientific Reports. 7.

Salehi AS, Smith MT, Schinn S, Hunt JM, Muhlestein C, Diray-Arce J, Nielsen B, Bundy BC. 2017. Efficient tRNA Degradation and Quantification in Escherichia Coli Cell Extract Using RNase‐Coated Magnetic Beads: A Key Step Towards Codon Emancipation. Biotechnology Progress. 33(5):1401-1407.

Asrar H, Hussain T, Hadi SM, Gul B, Nielsen B, Khan MA. 2017. Salinity induced changes in light harvesting and carbon assimilating complexes of Desmostachya bipinnata (L.) Staph. Environmental and Experimental Botany. 135:86-95.

Morley SA, Nielsen B. 2016. Plant Mitochondrial DNA. Frontiers in Bioscience. 22(Landmark Edition):1023-1032.

Nielsen B, Ahmad N, Burgess SJ. 2016. Advances in plastid biology and its applications. Frontiers in Plant Science. 2 pages.

Adnan MY, Hussain T, Asrar H, Hameed A, Gul B, Nielsen B, Khan MA. 2016. Desmostachya bipinnata manages photosynthesis and oxidative stress at moderate salinity. Flora. 225:1-9.

Perry CE, Gale SD, Erickson LD, Wilson E, Nielsen B, Kauwe JS, Hedges DW. 2016. Seroprevalence and Serointensity of Latent Toxoplasma gondii in a Sample of Elderly Adults With and Without Alzheimer Disease. Alzheimer Disease and Associated Disorders. 30(2):123-126.

Larson MJ, Clayson PA, Keith CM, Hunt IJ, Hedges DW, Nielsen B, Call VR. 2016. Cognitive Control Adjustments in Healthy Older and Younger Adults: Conflict Adaptation, the Error-Related Negativity (ERN), and Evidence of Generalized Decline with Age. Biological Psychology. 115:50-63.

Morley S, Nielsen B. 2016. Chloroplast DNA copy number changes during plant development in organelle DNA polymerase mutants. Frontiers in Plant Science. 7:57 (10 pages).

Diray-Arce J, Clement MJ, Gul B, Khan A, Nielsen B. 2015. Transcriptome Assembly, Profiling and Differential Gene Expression Analysis of the Halophyte Suaeda fruticosa Provides Insights into Salt Tolerance. BMC Genomics. 16:353:24 pages.

Gul B, Ansari R, Ali H, Adnan Y, Weber DJ, Nielsen B, Koyro HW, Khan MA. 2014. The sustainable utilization of saline resources for livestock feed production in arid and semi-arid regions: A model from Pakistan. Emirates Journal of Food and Agriculture. 26(12):1032-1045.

Cupp JD, Nielsen B. 2014. DNA Replication in Plant Mitochondria. Mitochondrion.

Diray-Arce J, Liu B, Cupp JD, Hunt T, Nielsen B. 2013. The Arabidopsis At1g30680 gene encodes a homologue to the phage T7 gp4 protein that has both DNA primase and DNA helicase activities. BMC Plant Biology. 13:36; 11 pages.

Cupp JD, Nielsen B. 2012. A Shift in Cellular Dynamics Occurs in an Arabidopsis Organellar DNA Polymerase IB Mutant. Physiologia Plantarum. DOI: 10.1111/ppl.12009.

Lassen MG, Kocchar S, Nielsen B. 2011. Identification of a soybean chloroplast DNA replication origin-binding protein. Plant Molecular Biology. 76(3-5):463-471.

Nielsen B, Cupp JD, Brammer J. 2010. Mechanisms for maintenance, replication, and repair of the chloroplast genome in plants. Journal of Experimental Botany. 61(10):2535-2537.

Manchekar M, Scissum-Gunn KD, Hammett LA, Backert S, Nielsen B. 2009. Mitochondrial DNA recombination in Brassica campestris. Plant Science. 177:629-635.

Khan MA, Ansari R, Ali H, Gul B, Nielsen B. 2009. Panicum turgidum, a potentially sustainable cattle feed alternative to maize for saline areas. Agriculture, Ecosystems and Environment. 129:542-546.

Nielsen B, Willis VC, Lin CY. 2007. Western blot analysis to illustrate relative control levels of the lac and ara promoters in Escherichia coli. Biochemistry and Molecular Biology Education. 35:133-137.

Manchekar M, Scissum-Gunn K, Song D, Khazi F, McLean SL, Nielsen B. 2006. DNA recombination activity in soybean mitochondria. Journal of Molecular Biology. 356:288-299.

Edmondson AC, Song D, Alvarez LA, Wall MK, Almond D, McClellan DA, Maxwell A, Nielsen B. 2005. Characterization of a mitochondrially targeted single-stranded DNA binding protein in Arabidopsis thaliana. Molecular Genetics and Genomics. 273:115-122.

Lugo SK, Kunnimalaiyaan M, Singh NK, Nielsen B. 2004. Required sequence elements for chloroplast DNA replication activity in vitro and in electroporated chloroplasts. Plant Science. 166:151-161.

Khazi FR, Edmondson AC, Nielsen B. 2003. An Arabidopsis homologue of bacterial RecA that complements an E. coli recA deletion is targeted to plant mitochondria. Molecular Genetics and Genomics. 269:454-463.

Nielsen B, Echols S. 2002. Use of a chloroplast rRNA gene to introduce basic molecular biology techniques. Biochemistry and Molecular Biology Education. 30:408-413.

Yang W, Qiu J, Nielsen B, Weaver DB. 2000. A preliminary genetic linkage map of soybean using an intraspecific cross of two cultivars: Peking and Lee. Soybean Genetics Newsletter.

Book

Ahmad N, Burgess SJ, Nielsen B. 2016. Advances in Plastid Biology and its Applications. 161 pages p.

Nielsen B. 2008. Student Study Guide to Accompany Genes IX. Cathleen Sether, editor. Sudbury, Massachusetts: Jones and Bartlett Publishers. 194 p.

Nielsen B, Grebenok R, Kilpatrick S. 2006. Test Item File for Essential Genes by Benjamin Lewin. Brent Nielsen, editor. Upper Saddle River, NJ: Pearson Prentice Hall. 212 p.

Book Chapter

Diray-Arce J, Gul B, Khan A, Nielsen B. 2015. HALOPHYTE TRANSCRIPTOMICS: UNDERSTANDING MECHANISMS OF SALINITY TOLERANCE. M.A. Khan, M. Ozturk, B. Gul, & M.Z. Ahmed (Eds), editors. Halophytes for Food Security in Dry Lands. p. 19 pages

Nielsen B, Cherry JH. 2004. Metabolic Engineering of Chloroplasts for Abiotic Stress Tolerance, in Molecular Biology & Biotechnology of Plant Organelles. H. Daniell and C.D. Chase, editors. Metabolic Engineering of Chloroplasts for Abiotic Stress Tolerance, in Molecular Biology & Biotechnology of Plant Organelles. Berlin, Germany: Kluwer Academic Press. p. 14

Conference Proceedings

Khazi F, Edmondson AC, Nielsen B. 2003. Characterization of mitochondrial targeted homologues of RecA and SSB in Arabidopsis thaliana.

Lassen MG, Nielsen B. 2003. Identification of DNA replication proteins associated with the chloroplast nucleoid.

Nielsen B, Khazi F, Edmondson A. 2002. Characterization of mitochondrial targeted homologues of RecA and SSB in Arabidopsis thaliana.

Khazi FR, Nielsen B. 2001. A mitochondria-targeted homologue of E. coli RecA in Arabidopsis thaliana.

Nielsen B, Lugo SK, Gandhi MS, Kochhar S, Kunnimalaiyaan M, Singh NK. 1999. Electroporation and in vitro chloroplast DNA replication studies.

Presentations

Nielsen B. The microbiome of native Utah halophytes: two isolates stimulate growth of a salt-sensitive crop plant. STEM seminar program, Alabama State University. Montgomery, Alabama. 2017.

Morley S, Miller J, Ridge PG, Nielsen B. Assembling the Arabidopsis Mitochondrial DNA Replisome. 28th International Conference on Arabidopsis Research. St. Louis, MO. 2017.

Kearl J, McNary C, Nielsen B. The microbiome of Utah halophytes. Intermountain Branch meeting, American Society of Microbiology. Weber State University, Utah. 2017.

Kearl J, McNary C, Nielsen B. The microbiome of Utah halophytes. Life Sciences Undergraduate Research Poster Competition. Brigham Young University. 2017.

Morley S, Nielsen B. Ancestry, Redundancy and Function of Arabidopsis PolIA and PolIB. LDS Life Sciences Symposium. Thanksgiving Point, Lehi, Utah. 2016.

Nielsen B, Augenstein T, Moore K, Arce J, Morley S. The Arabidopsis Single Stranded DNA Binding Protein SSB1 May Regulate Mitochondrial and Chloroplast DNA Replication. Mitochondria and Chloroplasts. Mt. Snow, Vermont. 2016.

Herdegen S, Morley S, Nielsen B. Effect of Mars Regolith on Growth of Anabaena variabilis. Western Section Meeting-ASPB. Brigham Young University, Provo, Utah. 2016.

Morley SG, Arce J, Nielsen B. Role of Organelle DNA Polymerases in Mitochondrial and Chloroplast DNA Replication in Arabidopsis thaliana. Western Section Meeting-ASPB. Brigham Young University, Provo, Utah. 2016.

Augenstein T, Arce J, Nielsen B. The Role of a Single Stranded Binding Protein in Plant Mitochondrial and Chloroplast DNA Replication. Western Section Meeting-ASPB. Brigham Young University, Provo, Utah. 2016.

Diray-Arce J, Clement MJ, Nielsen B. Using Bioinformatics as a tool to understand salt tolerance: de novo transcriptome assembly and differential expression analysis of the halophyte Suaeda fruticosa. BIOT 2105-Biotechnology & Bioinformatics Symposium. Brigham Young University, Provo, UT. 2015.

Nielsen B, Diray-Arce J. Differential expression analysis of genes involved in salt tolerance in the halophyte Suaeda fruticosa. 2nd International Conference on Physiological, Biochemical and Molecular Arguments for Salt Tolerance. Doha, Qatar. 2015.

Nielsen B, Morley S, Shedge V, Mackenzie SA. Non-redundant functions of dual-localized organellar DNA replication proteins. 9th International Conference for Plant Mitochondrial Biology. Wroclaw, Poland. 2015.

Nielsen B, Morley S, Cupp JD. Chloroplast DNA copy number variation during plant development and in replication protein mutants in Arabidopsis. From Molecules to Cells seminar program. Berlin, Germany. 2015.

Diray-Arce J, Clement MJ, Gul B, Khan MA, Nielsen B. Global Profiling, de novo assembly, differential expression and phylogeny of the halophyte Suaeda fruticosa to understand salinity tolerance. BIOT 2104-Biotechnology & Bioinformatics Symposium. Provo, Utah. 2014.

Larson MJ, Perry C, Hedges DW, Nielsen B, Holt-Lunstad J, Call VR. The interaction between dopamine D2 receptor gene, telomere length, and ERP indices in performance monitoring in community-dwelling older adults. Society for Psychophysiological Research. Atlanta, Georgia. 2014.

HIll KR, Hunt I, Perry CE, Hedges DW, Nielsen B, Holt-Lunstad J, Call MJ, Larson MJ. Performance monitoring and serotonin transporter gene polymorphisms (5-HTTLRP) in older adults. Society for Psychophysiological Research. Atlanta, Georgia. 2014.

Nielsen B, Arce J. Transcriptome and proteome analysis of genes involved in salt tolerance in the halophyte Suaeda fruticosa. International Conference on Halophytes for Food Security in Dry Lands. Doha, Qatar. 2014.

Larson MJ, Perry CE, Nielsen B, Holt-Lunstad J, Farrer TJ, Hedges DW, Call VR. The influence of telomere length on cognitive functioning in healthy community-dwelling older adults. International Neuropsychological Society. Seattle, WA. 2014.

Diray-Arce J, Clement MJ, Gul B, Khan A, Nielsen B. De novo Transcriptome Assembly of the halophyte Suaeda fruticosa. Plant & Animal Genomes XXII. San Diego, CA. 2014.

Diray-Arce J, Clement MJ, Gul B, Khan A, Nielsen B. Optimization and analysis of de novo transcriptome assembly of the halophyte Suaeda fruticosa. BIOT (Biotechnology and Bionformatics). Brigham Young University, Provo, UT. 2013.

Diray-Arce J, Gul B, Khan A, Nielsen B. Characterization of salt-tolerant genes in the halophyte Suaeda fruticosa. LDS Life Sciences Symposium. Salt Lake City, UT. 2013.

Nielsen B, Cupp JD, Brammer J. A tale of two polymerases: The dual-localized organelle DNA polymerases in Arabidopsis are not fully functionally redundant. Third International Symposium on Chloroplast Genomics and Genetic Engineering. Rutgers University, New Jersey. 2013.

Larson MJ, Clayson PE, Call VR, Nielsen B, Hedges DW. Cognitive control and conflict adaptation in healthy older adults: an electrophysiological study. International Neuropsychological Society. Waikoloa, Hawaii. 2013.