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A list of our published work can also be found at PubMed:

Bio-Protocol | In revision 2023


Chaiamarit T, Wu Y, Verhelle A, Encalada SE. Fluorescence assays for tracking of cell surface protein internalization and endosomal sorting in axons of primary mouse hippocampal neurons. In revision. 

bioRxiv | September 2022


Yoon L, Botham RC, Verhelle A, Sanz-Martinez P, Xu J,  Cole CM, Tan EP, Chou CC, Cuoco CA, Massey LA, Labra S, Elia LP, Ta A, Ardejani MS, Lee K, Kline GM, Xiao Q, Cano-Franco S, Lyang NJ, Hou WC, Yu A, Fox S, Ko Y, Wulkop-Gil C, Ibrahim LH, Jiang S, Meneses A, Nelson LT, Peng H, Lipton SA, Bollong MJ, Hansen M, Morimoto RI, Petrassi HM, Wiseman RL, Powers ET, Finkbeiner S, Garza D, Finley D, Prado MA, Dikic I, Frydman J*, Johnson KA*, Silva MC*, Haggarty SJ*, Stolz A*, Encalada SE*, Jeffery W. Kelly*.  mTOR inhibitor-independent autophagy activator ameliorates tauopathy and prionopathy neurodegeneration phenotypes.


* Co-corresponding authors.

Science Advances | December 2021


Chassefeyre R, Chaiamarit T, Verhelle A, Novak SW, Andrade LR, Leitao ADG, Manor U, Encalada SE. 2021Endosomal Sorting Drives the Formation of Mutant Prion Protein Endoggresomes. Cover article, Sci. Adv. 7(52), DOI: 10.1126/sciadv.abg3693.


         Comment on Faculty Opinions:







Autophagy | October 2021


Nieto-Torres JL, Encalada SE, Hansen M.  2021. LC3B phosphorylation: autophagosome's ticket for a ride toward the cell nucleus. Autophagy, Oct;17(10):3266-3268. 

doi: 10.1080/15548627.2021.1961073. Epub 2021 Aug 23.

Current Biology | August 2021


Nieto-Torres JL, Shanahan S-L, Chassefeyre R, Landeras-Bueno S, Encalada SE*, Hansen M*. 2021LC3 phosphorylation regulates FYCO1 binding and directional transport of autophagosomes.  Current Biology Aug 9;31(15):3440-3449.e7. doi: 10.1016/j.cub.2021.05.052 PubMed PMID: 34146484; NIHMSID:NIHMS1717570.

* Co-corresponding authors.

Viruses | July 2021


Race B, Williams K, Baune C, Striebel JF, Encalada SE, Chesebro B. 2021Deletion of Kif5c does not alter prion disease tempo or spread in mouse brain. Viruses 13(7), 1391

Human Molecular Genetics | May 2019

Butler VJ, Salazar DA, Soriano-Castell D, Alves-Ferreira M, Dennissen FJA, Vohra M, Oses-Prieto JA, Li KH, Wang AL, Jing B, Li B, Groisman A, Gutierrez E, Mooney S, Burlingame AL, Ashrafi, K, Mandelkow E-M, Encalada SE, Kao AW.  2019Tau/MAPT disease-associated variant A152T alters tau function and toxicity via impaired retrograde axonal transport. Human Molecular Genetics. 2019 May 1;28(9):1498-1514. PMID: 30590647. PMCID: PMC6489414 

PNAS | July 2018

Madhivanan K, Greiner ER, Alves-Ferreira M, Soriano-Castell D, Rouzbeh N, Aguirre CA, Paulsson JF, Chapman J, Jian X, Ooi FK, Lemos C, Dillin A, Prahlad V, Kelly JW, Encalada SE. 2018Cellular Clearance of Circulating Transthyretin Decreases Cell Non-Autonomous Proteotoxicity in Caenorhabditis elegans.  Proc Natl Acad Sci U S A. Jul 30. pii: 201801117. doi: 10.1073/pnas.1801117115. PMID:30061394. PMCID: PMC6099907.

          Cited in EurekAlert!:             

Traffic | October 2016

Neumann S, Chassefeyre R, Campbell GE, Encalada SE. 2017KymoAnalyzer: a software tool for the quantitative analysis of intracellular transport in neurons. Traffic Jan;18(1):71-88. doi: 10.1111/tra.12456. Epub 2016 Dec 11. PMCID: PMC5473519.

Click here to download the KymoAnalyzer software!

eLife | December 2015

Rangaraju S, Solis GM, Thompson RC, Gomez-Amaro RL, Kurian L, Encalada SE, Niculescu III, AB, Salomon DR, Petrascheck M. 2015Suppression of transcriptional drift extends C. elegans lifespan by postponing the onset of mortality. eLife Dec 1;4:e08833. doi: 10.7554/eLife.08833. PMCID: PMC4720515.  

Nature Reviews Drug Discovery | September 2015

Eisele YS, Monteiro C, Fearns C, Encalada SE, Wiseman RL, Powers ET, Kelly JW. 2015Targeting protein aggregation for the treatment of degenerative diseases. Nat Rev Drug Discov. Nov;14(11):759-80. doi: 10.1038/nrd4593.  PMCID: PMC4628595


J Am Chem Soc | June 2015

Baranczak A, Liu Y, Connelly S, Han Du W-E, Greiner ER, Genereux JC, Wiseman RL, Eisele YS, Bradbury NC, Dong J, Noodleman L, Sharpless KB, Wilson IA, Encalada SE*, Kelly JW* 2015A fluorogenic aryl fluorosulfate for intraorganellar transthyretin imaging in living cells and in Caenorhabditis elegans. J Am Chem Soc. 2015 Jun 17;137(23):7404-14. doi: 10.1021/jacs.5b03042. Epub 2015 Jun 8. PMCID: PMC4472559

*Co-corresponding Authors



JoVE | October 2014

Neumann S., Campbell G.E., Szpankowski L., Goldstein L.S.B., Encalada S.E.* 2014Characterizing the composition of molecular motors on moving axonal cargo using “Cargo Mapping” analysis. J Vis Exp. Oct 30;(92):e52029. doi: 10.3791/52029 PMCID: PMC4353387.

*Corresponding Author

      Click here to see JoVE Video!

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Annual Review of Biophysics | May 2014

Encalada S.E.*, & Goldstein L.S.B.* 2014Biophysical challenges to axonal transport: motor-cargo deficiencies and neurodegeneration. Annu Rev Biophys. 141-69. PMID: 24702007. PMID: 24702007.

*Co-Corresponding authors

J Cell Sci | April 2014


Otero MG, Alloatti M, Cromberg LE, Almenar-Queralt A, Encalada SE, Pozo Devoto VM, Bruno L, Goldstein LSB, Falzone TL 2014Fast axonal transport of the proteasome complex depends on membrane interaction and molecular motor function. J Cell Sci. 2014 Apr 1;127(Pt 7):1537-49. doi: 10.1242/jcs.140780. PMID: 24522182. 


PNAS | May 2012

Szpankowski L., Encalada S.E., Goldstein L.S.B. 2012Subpixel colocalization reveals amyloid precursor protein-dependent kinesin-1 and dynein association with axonal vesicles. Proc Natl Acad Sci U S A. 2012 May 29;109(22):8582-7. doi: 10.1073/pnas.1120510109. PMID: 22582169. PMCID: PMC3365224. 

          Cited in Faculty of 1000:
          Stevens, D:


Cell | February 2011

Encalada SE*, Szpankowski L, Xia CH, Goldstein LSB*. 2011Stable kinesin and dynein assemblies drive the axonal transport of mammalian prion protein vesicles. Cell Feb 18;144(4):551-65. PMID: 21335237. PMCID: PMC3576050. 

*Co-Corresponding authors


          Cited in Faculty of 1000:
              Sheng Z:
              Kuta A, Fisher E:
          Cited in Alzheimer Research Forum:

     Featured in:


Encalada SE, Goldstein LSB. 2009Axonal Transport of the Prion Protein and Prion Neuroinvasion. The New Encyclopedia of Neuroscience (Larry Squire, ed.). 2009. Elsevier, Oxford, UK, pp. 1071-1075.



Encalada SE, Moya KL, Lehmann S, Zahn R. 2007. The role of the prion protein in the molecular basis for synaptic plasticity and nervous system development. J Mol Neurosci. 2008;34(1):9-15. Epub 2007 Jun 14. doi: 10.1007/s12031-007-0011-x. PMID: 18157653. 

[PubMed Link]



Encalada SE, Willis J, Lyczak R, Bowerman B. 2005A spindle checkpoint functions during mitosis in the early Caenorhabditis elegans embryo. Mol Biol Cell.  Mar;16(3):1056-70. Epub 2004 Dec 22. (cover). doi: 10.1091/mbc.e04-08-0712. PMID: 15616189. PMCID: PMC551473. 

[PubMed Link]



Gomes JE, Encalada SE, Swan KA, Shelton CA, Carter JC, Bowerman B. 2001The maternal gene spn-4 encodes a predicted RRM protein required for mitotic spindle orientation and cell fate patterning in early Caenorhabditis elegans embryos. Development Nov;128(21):4301-14. PMID: 11684665.

[PubMed Link]



Encalada SE, Martin PR, Phillips JB, Lyczak R, Hamill DR, Swan KA, Bowerman B. 2000DNA replication defects delay cell division and disrupt cell polarity in early Caenorhabditis elegans embryos.  Developmental Biology Dec 15;228(2):225-38. doi: 10.1006/dbio.2000.9965. PMID: 11112326. 

[PubMed Link]


Fernando P., Pfrender M.E., Encalada S.E., Lande R. 2000Mitochondrial DNA variation, phylogeography and population structure of the Asian elephant. Heredity (Edinb). Mar;84 ( Pt 3):362-72. doi: 10.1046/j.1365-2540.2000.00674.x. PMID: 10762406. 

[PubMed Link]


Encalada S.E., Zurita J.C., Bowen B.W. 1999Genetic consequences of coastal development:  the sea turtle rookeries at X’cacel Mexico. Marine Turtle Newsletter 83:8-10.



Bolten A.B., Bjorndal K.A., Martins H.R., Dellinger T., Biscoito M.J., Encalada S.E., Bowen B.W. 1998Transatlantic developmental migrations of loggerhead sea turtles demonstrated by mtDNA sequence analysis.  Ecological Applications 8:1-7.



Encalada S.E., Bjorndal K.A., Bolten A.B., Zurita J.C., Schroeder B., Possardt, E., Sears C.J., Bowen B.W. 1998. Population structure of loggerhead turtle (Caretta caretta) nesting colonies in the Atlantic and Mediterranean as inferred from mitochondrial DNA control region sequences. Marine Biology 1130:567-575.



Lahanas P.N., Bjorndal K.A,. Bolten A.B., Encalada S.E., Miyamoto M.M., Valverde R.A., Bowen B.W. 1998Genetic composition of a green turtle (Chelonia mydas) feeding ground population:  evidence for multiple origins.  Marine Biology 130:345-352.



Rankin-Baransky K., Williams C.J., Bowen B.W., Encalada S.E., Spotila J.R. 1998Origin of loggerhead sea turtles in the western north Atlantic as determined by mtDNA analysis. In: Proceedings of the Seventeenth Annual Sea Turtle Symposium. (Epperly, S. P., and Braun, J. Compilers), U.S. Dep.  Commer.  NOAA Tech Memo. 1998 NMFS-SEFSC-415. 294 pp.; 1998, p. 79. doi: 10.2307/1565903



Encalada S.E, Lahanas P.N., Bjorndal K.A., Bolten A.B., Miyamoto M.M., Bowen B.W. 1996Phylogeography and population structure of the green turtle (Chelonia mydas) in the Atlantic Ocean and Mediterranean Sea:  a mitochondrial DNA control region assessment.  Molecular Ecology Aug;5(4):473-83. PMID: 8794558.

[PubMed Link]



Encalada S.E. 1996Conservation genetics of Atlantic green turtles:  cases of imminent rookery extinctions.  In:  Proceedings of the First Sea Turtle Genetics Symposium (Bowen, B. W., and W. N. Witzell, eds). NOAA Technical Memorandum NMFS-SEFSC-396, pp33-40.



Abreu-Grobois F.A., Bass A.L., Dutton P.H., Encalada S.E. 1996PCR-RFLP analysis of sea turtle populations in the era of DNA sequencing:  is it still useful? In:  Proceedings of the First Sea Turtle Genetics Symposium (Bowen, B. W., and W. N. Witzell, eds).  NOAA Technical Memorandum NMFS-SEFSC-396, pp55-67.

Encalada S.E., Eckert S.A., Bowen B.W. 1994Forensic applications of mitochondrial DNA markers:  origin of a confiscated green turtle.  Marine Turtle Newsletter  66:1-3. [Link]



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