Paula Ann Bubulya, Ph.D.

Department:
Biological Sciences
Title:
Associate Professor and Associate Chair
Address:
Diggs Laboratory, 3640 Colonel Glenn Hwy., Dayton, OH 45435-0001
Phone:
937-775-2403

Academic Appointments

Equity Fellow (2015 – present), CoSM Equity Fellow, Office of Multicultural Affairs and Community Engagement, Wright State University, Dayton, OH

Associate Chair (2013 – present), Department of Biological Sciences, Wright State University, Dayton, OH

Associate Professor (2011-present), Department of Biological Sciences, Wright State University, Dayton, OH

Assistant Professor (2005-2011), Department of Biological Sciences, Wright State University, Dayton, OH

Postdoctoral Fellow (1999-2005), Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.  Research Advisor: Dr. David Spector

Graduate Research Assistant (1996-1997), University of Toledo, Toledo, OH.  Research Advisors: Dr. Keith Johnson and Dr. Peggy Wheelock

Graduate Teaching Assistant (1993-1998), University of Toledo, Toledo, OH.

Assistant Gross and Fetal Pathology Research Technician (1992-1993), Springborn Laboratories, Spencerville, OH.

Undergraduate Research Assistant (1990-1992), University of Dayton, Dayton, OH.  Research advisor: Panagiotis Tsonis

 

 

Education History: 

Education History

  • 1988—1992, B.S. University of Dayton, Dayton, Ohio
  • 1993—1998, Ph.D. University of Toledo, Toledo, Ohio
  • 1999—2005, Postdoctoral Fellow, Cold Spring Harbor Laboratory, New York

 

Academics

A. Courses Taught

 

2015                BIO 4030: Cell Biology and Physiology

2014-2016      BIO 2110: Molecular Genetics

2015                BIO 800: Regulation of mRNA Localization

2012                BMS 991: Molecular Basis of Inherited Disease (Spinal Muscular Atrophy Module)

2005-2016      BIO 730/BMS 778: Graduate Cell Biology

2005-2014      BIO 446/646: Advanced Cell Biology

2007-2015      BIO 448/648    Advanced Cell Techniques Laboratory

2010                BIO 701-02/BMS 991-07: Epigenetics

2009                BIO 492 Emerin in Nuclear Organization and Disease

2006                BIO 492 Seminar course on Transcriptional Regulation of Gene Expression

2006-2016      BIO 495: Senior Honors Research (2 students per quarter)

2006-2011      BIO 499: Undergraduate Research (~2 students per year)

2005-2016      BIO 699: Graduate Research for M.S. students (2 students per quarter)

2006-2015      BMS 997: Laboratory Rotation for Ph.D. students (1-2 students per year)

2005-2014      BIO 899: Graduate Research for Ph.D. students (2 students per quarter)

2008-2013      BMS 899: Dissertation Research for Ph.D. students (2 students per quarter)

 

 

 

 

 

Research statement: 

Pre-mRNA processing is an essential feature of gene expression in eukaryotic cells. Coordination of gene expression and cell cycle progression is critical for cellular health. Nuclear speckles contain pre-mRNA processing factors, many of which remain to be characterized with regard to their specific nuclear functions and human disease relevance. Nearly 200 mRNA processing proteins have been identified, yet little is known about how these factors assemble into functional complexes within human cell nuclei. Our lab recently discovered that two related mRNA processing proteins, Btf and TRAP150, have critical roles in cell cycle regulation. Ongoing research in the Bubulya laboratory aims to define mechanistic functions for Btf, TRAP150 and SON in fundamental cellular processes including nuclear speckle organization, gene regulation, and cell cycle control. 

Research Opportunities for Students: WSU undergraduate and graduate students seeking laboratory experience in cell and molecular biology should contact Dr. Paula Bubulya regarding project availability.

 

 

 

Service: 

 A. Committee Service in Wright State University

1. Research Council (2013 – 2015)

 

B. Committee Service in Wright State University College of Science and Mathematics

1. COSM Safety Committee (Member); 2007

2. COSM Diversity Committee (Member); 2007 – present

3. 10-year review of Biological Sciences Department Chair, 2012

4. Women in Science Giving Circle, Grants and Scholarships Committee Chair, 2013 – present

5. CoSM Space Committee 2014 – present

 

C. Committee Service in Wright State University Department of Biological Sciences

1.  Space Committee (Chair); 2008 – present

2.  Seminar Committee (Member); 2005 – 2013

3.  Honors Program Committee (Chair); 2007 – 2011

4.  Honors Program Committee (Member); 2012-present

5.  Search Committee for Molecular Biologist faculty position (Member); 2007, 2008

6.  Search Committee for Advisor (Member) 2013

7.  Search Committee for Advisor (Member) 2014

8.  Search Committee for Applied Physiology faculty position (Member); 2013-2014

 

D. Committee Service in Wright State University Biomedical Sciences Ph.D. Program

1.     BMS Program Retreat, Program Committee, Member, 2008

2.     Academic Policies Committee, Elected Member, 2010 – 2012

3.     Curriculum Committee, Elected Member, 2013 – present

4.     Grants Ad hoc Committee, Member, 2014 - present

 

E. Committee Service on University Committees at Wright State University

1.  Research Council, Appointed Member, 2013-2015

 

F. External Professional Service

1. Grant Reviewer:

a.  NSF Division of Molecular and Cellular Biosciences, August 2013, Ad hoc reviewer

b.  NIH R15 Review Panel Member, October 2012

c.  NSF Division of Molecular and Cellular Biosciences, September 2011, Ad hoc reviewer

d.  NSF Division of Molecular and Cellular Biosciences, October 2010, Ad hoc reviewer

e.  NSF Proposal Review Panel Member National Science Foundation, Division of Biological Infrastructure Study Section, April 2008

     2. Meeting Organizer/Session Chair:

a.     American Society for Cell Biology, Invited Organizer/Chair of Minisymposium, “Structure Function and Expression of the Genome”, ASCB Annual Meeting December 2013

b.     Rustbelt RNA Meeting Organizer, October 2011 Chair

c.      Rustbelt RNA Meeting Organizer, October 2010 Vice Chair

d.     Wright State University STEM “Women in Science” Panel Organizer, WSU, April 2007 Chair

     3. Reviewer for Scientific Journals:

a.  Molecular Biology of the Cell

b.  Experimental Cell Research

c.  Molecular and Cellular Biology

d.  Nucleus

e.  PLOS One

f.   Chromosoma

g.  Briefings in Functional Genomics

h.  Journal of Molecular Cell Biology

i.   International Journal of Molecular Sciences

j.   RNA

     4. Committee Service for Professional Societies

         American Society for Cell Biology:

1. ASCB Women in Cell Biology Committee (Invited member, 2012-2015)

2. ASCB Ambassador 2009-present

3. ASCB One-on-One CV Review Service (since 2012)

4. ASCB Roundtable Discussion Leader, (Invited, 2013)

5. ASCB Women in Cell Biology Committee annual meeting Mentoring Theater co-organizer (2014, 2015)

 

 

Students Advised: 

Graduate and undergraduate thesis advisees (year of graduation): 

1.     Jonathan Blaza, Department of Biological Sciences Honors Program, B.S. student (2010)

2.     *Keshia Torrés-Muñoz, Department of Biological Sciences Honors Program, B.S. student (2010)

3.     Divya Potabathula, Department of Biological Sciences M.S. student (2009)

4.     Lauren Ford, Department of Biological Sciences Honors Program, B.S. student (2009)

5.     Jaclyn McCabe, Department of Biological Sciences Honors Program, B.S. student (2009)

6.     Theadore Hufford, Department of Biological Sciences Honors Program, B.S. student (2008)

7.     Amy Pitstick, Department of Biological Sciences M.S. student (2010)

8.     Alok Sharma, BMS Ph.D. student (2011)

9.     *Keshia Torrés-Muñoz, Department of Biological Sciences, M.S. student (2012)

10.   Sapna Shah Varia, BMS Ph.D. student (2012)

11.   Vishnu Battini, Department of Biological Sciences M.S. student (2014)

(*underrepresented minority student)

 

Current thesis advisees:

12.   Jennifer Pence, Department of Biological Sciences M.S. student (since Summer 2011)

13.   Melissa Ward, Department of Biological Sciences Honors Program, B.S. student (since Spring 2013)

14.   Jennifer Barbadora, Department of Biological Sciences Honors Program, B.S. (since Fall 2013)

15.   Hannah Duckro, Department of Biological Sciences Honors Program, B.S. (since Spring 2014)

16.   Divya Cheedu, Department of Biological Sciences M.S. student (since Fall 2014)

 

Non-thesis students who worked in my laboratory:

1.     Jennifer Weber, Department of Biological Sciences, B.S. student (2011)

2.     *Danielle Dukes, Department of Biological Sciences, M.S. student (2011)

3.     Joshua Byrwa, Department of Biological Sciences, B.S. student (2010)

4.     Ramya Maddela, Department of Biological Sciences Honors Program, B.S. student (2008-2009)

5.     Tammy Haas, Department of Chemistry, B.S. student (2008)

6.     Tara Wagner, Department of Biological Sciences, B.S. student (2006)

7.     Brandon Wolters, Department of Biological Sciences, B.S. student (2005-2006)

8.     Hollie Gallagher, Department of Biological Sciences, B.S. student (2005-2006)

(*underrepresented minority student)

 

Honors thesis co-advisees:

1.     Ashley Sawyer, Department of Biological Sciences Honors Program, B.S. student (co-advisor with Dr. Michael Leffak)

2.     Tharu Fernando, Department of Biological Sciences Honors Program, B.S. student (co-advisor with Dr. Courtney Sulentic)

 

Technicians Supervised:

Vishnu Battini (April – November 2014)

 

Ph.D. Dissertation Committees at Wright State University:

1.    Zhihui Deng, BMS Ph.D. program (advisor: Dr. Robert Fyffe); graduated Winter 2009

2.    Kashmira Kulkarni, BMS Ph.D. program (advisor: Dr. Thomas Brown); graduated Spring 2009

3.    Ramnaresh Pandey, BMS Ph.D. program (dismissed)

4.    Melissa Bautista, BMS Ph.D. program (dismissed)

5.    Shere Myers, BMS Ph.D. program (advisor: Dr. Michael Leffak); graduated Fall 2010

6.    Xiaomi Chen, BMS Ph.D. program (advisor: Dr. Michael Leffak); graduated Winter 2011

7.    Robert McCrae, BMS Ph.D. program (left the program)

8.    Kelly Miller, BMS M.D./Ph.D. program (advisor: Dr. Steven Berberich); graduated Spring 2010

9.    Casey Wells, BMS Ph.D. program (left the program)

10.   Ana Benito-Gonzales, BMS Ph.D. program (advisor: Dr. Francisco Alvarez); graduated Spring 2011

11.   Mary Leonard, BMS Ph.D. program (advisor: Dr. Madhavi Kadakia); graduated Fall 2012

12.   Renee Albers, BMS Ph.D. program (advisor: Dr. Thomas Brown); since 2013

13.  Elliot Hanes, BMS Ph.D. program (advisor: Dr. Shulin Ju); since 2015

 

Ph.D. Dissertation Committees outside of Wright State University:

1.   Haya Sarras, University of Toronto, Canada (2012)

 

M.S. Committees at Wright State University:

1.     Leah Shurte (since 2014)

2.     Nayana Nikumbh (since 2013)

3.     Steve Sayson (since 2013)

4.     Emily King (since 2012)

5.     Brock Miniard, M.S. (student’s research was done at Batelle, graduated 2012)

6.     Jennifer Chang, M.S. (advisor: Mill Miller); graduated 2012

 

BMS Ph.D. student rotations in my laboratory:

1.  Zhihui Deng (2006)

2.  Brooke Andrews (2007)

3.  Casey Wells (2007)

4.  Mary Leonard (2008)

5.  Richard Pye (2011)

6.  Andrew Snyder (2012)

7. Reilly Clark (2015)

 

Professional

Publications: 

 (graduate students underlined)

  1. Battini, V.P., A. Bubulya and P.A. Bubulya. 2015. Accurate splicing of HDAC6 Pre-mRNA requires SON. Int. J. Mol. Sci. 16:5886-5899. doi:10.3390/ijms16035886.
  2. Lu, X., H.-H. Ng and P.A. Bubulya. 2014. The role of SON in splicing, development and disease. Wiley Interdisciplinary Reviews (WIREs) RNA. doi: 10.1002/wrna.1235  PMCID: PMC4138235
  3. Lu, Xinyi, J. Göke, F. Sachs, P.-É. Jacques, H. Liang, B. Feng, G. Bourque, P.A. Bubulya and H.-H. Ng. 2013. SON connects the splicing-regulatory network with pluripotency in human embryonic stem cells. Nat. Cell Biol. 15: 1141–1152. . PMID: 24013217; PMCID: PMC4097007; Comment in EMBO J. “Let’s Sp(l)ice up pluripotency!” Nov 13;32(22):2903-4.
  4. Varia, S., D. Potabathula, Z. Deng, A. Bubulya and P.A. Bubulya. 2013. Btf and TRAP150 have distinct roles in regulating subcellular mRNA distribution. Nucleus. 4:229-40. PMID: 23778535; PMCID: PMC3720753
  5. Leonard, M.K., N.T. Hill, P.A. Bubulya and M. Kadakia. The PTEN-Akt pathway impacts the integrity and composition of mitotic centrosomes. 2013. Cell Cycle. 12:1406-15. PMID: 23574721; PMCID: PMC3674068
  6. Bubulya A. and P. A. Bubulya. 2012. “Imaging cellular metabolism” in Paula A. Bubulya, ed., Cell Metabolism: Cell Homeostasis and Stress Response. Rijeka, Croatia: InTech. Open Access. ISBN 978-953-307-978-3
  7. Sharma, A., M. Markey, K. Torres-Munoz, S. Varia, M. Kadakia, A. Bubulya and P. A. Bubulya. 2011. Son Maintains Accurate Splicing for a Subset of Human Pre-mRNAs. J. Cell Sci. 124: 4286–4298.  PMID: 22193954; PMCID: PMC3258111
  8. Peng, H.J., K. Henkels, M. Mhankali, C. Marchal, P. Bubulya, M. Dinauer and J. Cambronero.  2011. The Dual Effect of Rac2 on Phospholipase D2 Regulation That Explains both the Onset and Termination of Chemotaxis. Mol. Cell Biol. 31:2227-40PMID: 21444720; PMCID: PMC3133238  
  9. Tripathi, V., J. Ellis, Z. Shen, D. Song, S.M. Freier, F. C. Bennett, A. Sharma, P. A. Bubulya, B. Blencowe, S. G. Prasanth, K. V. Prasanth. Mol. Cell. 39:925-938. PMID: 20797886
  10. Chowdhury, A. G. Liu, M. Kemp, X. Chen, N. Katrangi, S. Meyers, M. Ghosh, J. Yao, Y. Gao, P. Bubulya and M. Leffak.  2010.  The DNA unwinding element binding protein DUE-B interacts with Cdc45 in preinitiation complex formation.  Mol. Cell Biol. 30:1495-1507.
  11. Sharma, A., H. Takata, K. Shibahara, A. Bubulya and P. A. Bubulya.  2010.  Son is essential for nuclear speckle organization and cell cycle progression.  Mol. Biol. Cell.  21:650-663. PMID: 20053686; PMCID: PMC2820428
  12. Takata, H. H. Nishijima, S. Ogura, T. Sakaguchi, P. A. Bubulya, T. Mochizuki and K. Shibahara.  2009.  Proteome analysis of human nuclear insoluble fractions.  Genes to Cells.  14:975-990. PMID: 19695025
  13. Su, M., K. Giang, K. Zumer, H. Jiang, I. Oven, J. L. Rinn, J. J. DeVoss, K. P. A. Johannes, W. Lu, J. Gardner, A. Chang, P. Bubulya, H. Y. Chang, B. M. Peterlin, and M. S. Anderson.  2008.  Mechanisms of an autoimmunity syndrome in mice caused by a dominant mutation in Aire.  J. Clin. Invest.  118:1712-1726. PMID: 18414681; PMCID: PMC2293336
  14. Bubulya P. A., K. V. Prasanth, T. J. Deerinck, D. Gerlich, J. Beaudouin, M. H. Ellisman, J. Ellenberg and D. L. Spector.  2004.  Hypophosphorylated SR splicing factors transiently localize around active nucleolar organizing regions in telophase daughter nuclei.  J. Cell Biol. 67:51-63. PMID: 15479736; PMCID: PMC2172523
  15. Saitoh, N., C. S. Spahr, S. Patterson, P. Bubulya, A. F. Neuwald and D. L. Spector.  2004.  Proteomic analysis of interchromatin granule clusters. Mol. Biol. Cell.  15:3876-3890.  PMID: 15169873; PMCID: PMC491843
  16. Bubulya P. A. and D. L. Spector. 2004.  “On the move”ments of nuclear components in living cells.  Exp. Cell Res.  296:4-11.
  17. Prasanth K. V., P. A. Sacco-Bubulya, S. G. Prasanth and D. L. Spector. 2003. Sequential entry of components of the gene expression machinery into daughter nuclei.  Mol. Biol. Cell.  14:1043-1057. PMID: 12631722; PMCID: PMC151578
  18. Sacco-Bubulya P. A. and D. L. Spector. 2002. Disassembly of interchromatin granule clusters alters the coordination of transcription and pre-mRNA splicing.  J. Cell Biol.156:425-436. PMID: 11827980; PMCID: PMC2173333
  19. Wahl J.K., J. E. Nieset , P. A. Sacco-Bubulya, T. M. Sadler , K. R. Johnson and M. J. Wheelock. 2000. The amino- and carboxyl-terminal tails of beta-catenin reduce its affinity for desmoglein 2.  J. Cell Sci. 113: 1737-45. PMID: 10769205
  20. Solomon, D., P. A. Sacco, S. G. Roy, I. Simcha, K. R. Johnson, M. J. Wheelock and Avri Ben-Ze'ev.  1997.  Regulation of beta-catenin levels and localization by overexpression of plakoglobin and inhibition of the ubiquitin-proteasome system.  J. Cell Biol.  139:1325-1335.  PMID: 9382877; PMCID: PMC2140206
  21. Wahl, J. K., P. A. Sacco, T. M. McGranahan-Sadler, L. M. Sauppe, M. J. Wheelock, and  K. R. Johnson.  1996.  Plakoglobin domains that define its association with the desmosomal cadherins and the classical cadherins: identification of unique and shared domains. J. Cell Sci. 109: 1143-1154. PMID: 8743961
  22. Sacco, P. A., T. M. McGranahan, M. J. Wheelock, and K. R. Johnson.  1995.  Identification of plakoglobin domains required for association with N-cadherin and alpha-catenin.  J. Biol. Chem. 271: 20201-20205.  PMID: 7650039

 

Professional Affiliations/Memberships: 

Professional Memberships

American Society for Cell Biology (Member since 1994)

RNA Society (Member since 2012)

 

 

Awards/Recognition: 

External Federal Funding

1.     Academic Research Enhancement Award 2R15GM-084407-02, awarded to Bubulya, P.A.  National Institutes of General Medical Sciences, National Institutes of Health; “Gene regulatory functions for the nuclear speckle scaffolding protein Son”; $292,000.  Award Period: July 18, 2011 – July 17, 2014

2.     Academic Research Enhancement Award 1R15GM-084407-01A1, awarded to Bubulya, P.A.  National Institutes of General Medical Sciences, National Institutes of Health; “A role for Son in maintaining nuclear speckle integrity”; $212,640.  Award Period: December 1, 2008 – July 31, 2011

3.     NSF MCB-1103934; awarded to Means, J and Bubulya, P.A.; “CONFERENCE: 2011 Rustbelt RNA Meeting to be held October 21-22, 2011 in Dayton, OH "; $12,000

4.     National Research Service Award, NIGMS, Postdoctoral Fellowship, Award 1F32 GM20688-02; awarded to Bubulya P.A.; Award period: 2000-2002

 

External Collaborative Federal Funding

NIH RO1 08-864-30 awarded to Dr. Michael Leffak (PI) G. Liu (co-PI) and P. A. Bubulya (co-PI), WSU; “The role of the DNA unwinding element binding protein, DUE-B, in DNA replication”; $294,145, May 21, 2009 - May 20, 2011

 

Internal Funding at Wright State University

1.     LEADER Advance Mentoring Group Proposal, (co-PIs Hubbard, Bhandari, Ganapathy) $5,000, 2013

2.     LEADER Advance Mentoring Group Proposal, (co-PIs L. Rouhana, S. Ju, Q Zhong) $5,000, 2013

3.     LEADER Advance Mentoring Individual Proposal, $2,000, 2013

4.     Ohio Third Frontier, Research Initiation Award, $24,999, 2011

5.     Research Challenge Award, $26,250, 2008

6.     Women in Science Giving Circle Award for Research, $5,000, 2008

7.     Center for Genomics Research Award, $21,500, 2008

8.     Teaching Enhancement Fund Award, $20,000, 2007

9.     Research Initiation Award, $10,000, 2006

10.   New Investigator Award, $25,000, 2006

11.  Research Challenge Award, $20,000, 2006

 

Academic Awards

1.     The Journal of Cell Science Traveling Fellowship, 2003

2.     Postdoctoral Traineeship in Nuclear Organization, Cold Spring Harbor Laboratory, 1999-2000

3.     American Society for Cell Biology Predoctoral Travel Award, 1998

 

Invited Keynote Address

 

1.  Bubulya, P.A. 2006 Annual Spring Symposium, University of Wyoming, Laramie, WY

 

     Invited Research Seminars

1.     Bubulya, P.A. University of Rio Grande (Ohio), October 2012 “New Insights into Nuclear Organization and Gene Expression”

2.     Bubulya, P.A. Kettering College, January 2012 “New Insights into Nuclear Organization and Splicing Regulation”

3.     Bubulya, P.A. Rosalind Franklin University Medical School, March 2011 “New Insights into Nuclear Organization and Splicing Regulation”

4.     Bubulya, P.A. Department of Biochemistry and Molecular Biology Seminar Series, Wright State University, January 2010 “Novel Functions for Nuclear Speckle Proteins in Nuclear Structure and Gene Regulation”

5.     Bubulya, P.A. Department of Biology Seminar Series, University of Toledo, March 2007

“Nuclear Speckles: New Possibilities for Coordinating Pre-mRNA Transcription and Processing”

6.     Bubulya, P.A. Department of Oral Biology Seminar Series, University of Nebraska Medical Center, March 2007 “Nuclear Speckles: New Possibilities for Coordinating Pre-mRNA Transcription and Processing”

7.     Bubulya, P.A. Department of NCBP Seminar Series, Wright State University School of Medicine, March 2006 “Dynamics and Assembly of the Pre-mRNA Splicing Machinery in Living Cells”

8.     Bubulya, P.A. Department of Biology Seminar Series, University of Dayton, January 2006

“Dynamics and Assembly of the Pre-mRNA Splicing Machinery in Living Cells”

 

   C.  Invited Talks at Conferences  

1.     Sapna Varia and P.A. Bubulya, American Society for Cell Biology Meeting, New Orleans, LA, December 2013

2.     Bubulya, P.A. American Society for Cell Biology Meeting, San Diego, CA, December 2009

3.     Bubulya, P.A. Dynamic Organization of Nuclear Function Meeting, Cold Spring Harbor, NY, September 2004

4.     Bubulya, P.A. Keystone Symposium on Dynamics of Cellular Organization, Taos, NM, February 2003

5.     Bubulya, P.A. Eukaryotic mRNA Processing Meeting, Cold Spring Harbor, NY, August 2001

6.     Bubulya, P.A. Dynamic Organization of Nuclear Function Meeting, Cold Spring Harbor, NY, September 2000

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