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Supplemental Materials from Published Works


 

2016

X. couchianus and X. hellerii genome models provide genomic variation insight among Xiphophorus species

Yingjia Shen, Domitille Chalopin, Tzintzuni Garcia, Mikki Boswell, William Boswell, Sergey A. Shiryev, Richa Agarwala, Jean-Nicolas Volff, John H. Postlethwait, Manfred Schartl, Patrick Minx, Wesley C. Warren and Ronald B. Walter. (2016) BMC Genomics. doi: 10.1186/s12864-015-2361-z

Supplemental Data

 


 

2015

Whole Body Melanoma Transcriptome Response in Medaka

Manfred Schartl, Yingjia Shen, Katja Maurus, Ronald Walter, Chad Tomlinson, Richard K. Wilson, John Postlethwait, Wesley C. Warren (2015). PLOS One DOI:10.1371/journal.pone.0143057

Supplemental Data

 

Molecular genetic response to varied wavelengths of light in Xiphophorus maculatus skin

Jordan Chang, Yuan Lu, William T. Boswell, Mikki Boswell, Kaela L. Caballero, Ronald B. Walter (2015). Comp Biochem Physiol C Toxicol Pharmacol., 178:104-15. doi: 10.1016/j.cbpc.2015.10.002. PMID: 26460196

Supplemental Data

 

Sex-specific molecular genetic response to UVB exposure in Xiphophorus maculatus skin

William Boswell, Mikki Boswell, James Titus, Markita Savage, Yuan Lu, Jianjun Shen, Ronald B. Walter (2015). Comp Biochem Physiol C Toxicol Pharmacol., 178:76-85. doi: 10.1016/j.cbpc.2015.07.007. PMID: 26256120

Supplemental Data

 

Molecular genetic response of Xiphophorus maculatusX. couchianus interspecies hybrid skin to UVB exposure

Yuan Lu, Mikki Bowswell, William Bowswell, Kuan Yang, Manfred Schartl, Ronald B. Walter (2015). Comp Biochem Physiol C Toxicol Pharmacol., 178:86-92. doi: 10.1016/j.cbpc.2015.07.011 PMID: 26254713

Supplemental Data

 

Exposure to fluorescent light triggers down regulation of genes involved with mitotic progression in Xiphophorus skin

Ronald B. Walter, Dylan J. Walter, William T. Boswell, Kaela L. Caballero, Mikki Boswell, Yuan Lu, Jordan Chang, Markita G. Savage (2015). Comp Biochem Physiol C Toxicol Pharmacol., 178:93-103. doi: 10.1016/j.cbpc.2015.08.006

Supplemental Data

 


 

2014

Novel Method for Analysis of Allele Specific Expression in Triploid Oryzias latipes Reveals Consistent Pattern of Allele Exclusion

Tzintzuni I. Garcia, Isa Matos, Yingjia Shen, Vagmita Pabuwal, Maria Manuela Coelho, Yuko Wakamatsu, Manfred Schartl, Ronald B. Walter (2014). PLOS ONE, 9(6): e100250. doi: 10.1371/journal.pone.0100250, PMID 24945156

Supplemental Data

 

Characterization and differential expression of CPD and 6–4 DNA photolyases in Xiphophorus species and interspecies hybrids

Dylan J. Walter, Mikki Boswell, Sara M. Volk de García, Sean M. Walter, Erik W. Breitenfeldt, William Boswell, Ronald B. Walter (2014). Comparative Biochemistry & Physiology, Part C, 163: 77-85. doi: 10.1016/j.cbpc.2014.01.006, PMID 24496042

Supplemental Data

 

A RAD-Tag Genetic Map for the Platyfish (Xiphophorus maculatus) Reveals Mechanisms of Karyotype Evolution Among Teleost Fish

Angel Amores, Julian Catchen, Indrajit Nanda, Wesley Warren, Ron Walter, Manfred Schartl, John H. Postlethwait (2014). Genetics, 197 2):625-641. doi: 10.1534/genetics.114.164293, PMID 24700104

Supplemental Data

 

Cortisol release in response to UVB exposure in Xiphophorus fish

Adam J. Contreras, Mikki Boswell, Kevin P. Downs, Amanda Pasquali, Ronald B. Walter (2014). Comparative Biochemistry & Physiology, Part C, 163:95-101. doi: 10.1016/j.cbpc.2014.02.004, PMID 24625568

Supplemental Data

 

UVB-induced gene expression in the skin of Xiphophorus maculatus Jp 163 B

Kuan Yang, Mikki Boswell, Dylan J. Walter, Kevin P. Downs, Kimberly Gaston-Pravia, Tzintzuni Garcia, Yingjia Shen, David L. Mitchell, Ronald B. Walter (2015). Comparative Biochemistry & Physiology, Part C, 163:86-94.  doi: 10.1016/j.cbpc.2014.01.008, PMID 24496042

Supplemental Data

 


 

2013

Phylogenomics Reveals Extensive Reticulate Evolution in Xiphophorus Fishes

Rongfeng Cui, Molly Schumer, Karla Kruesi, Ronald Walter, Peter Andolfatto and Gil G. Rosentha (2013). Evolution, 67(8): 216-2179. doi: 101111/evo.12099, PMID 23888843

Supplemental Data

 

Comprehensive phylogenetic analyses of all species of swordtails and platies (genus Xiphophorus) uncover a hybrid origin of a swordtail fish, Xiphophorus monticolus

Kang Hyoun, J., Schartl,M., Walter, R.B., and A.  Meyer (2013). BMC Evolutionary Biology, 13:25-44. doi: 10.1186/1471-2148-13-25. PMID: 23360326

Supplemental Data

 

An evaluation of the hybrid speciation hypothesis for Xiphophorus clemenciae based on whole genome sequences

Schumer, M.C., Cui, R., Boussau, B., Walter, R.B., Rosenthlal, G., and P. Andolfatto. (2013).  Evolution, 67(4):1155-1168. doi: 10.1111/evo.12009. PMID: 23550763

Supplemental Data

 

The genome of the platyfish, Xiphophorus maculatus

Schartl, M.+, Walter, R. B.+, Shen. Y., Garcia, T., Catchen, J., Amores. A., Braasch. I., Chapolin D., Volff, J-N., Lesch, K-P., Bisazza, A., Minx P., Wilson. R.K., Fuerstenberg, S., Boore, J., Postlethwait, J. H. and W.C. Warren. (2013). (+These authors contributed equally to the work), Nature Genetics, 45(5):567-572. doi: 10.1038/ng.2604. PMID: 2354270

Supplemental Data

 

Alternative strategies for development of a reference transcriptome for quantification of allele specific expression in organisms having sparse genomic resources

Shen, Y., Garcia, T., Pabuwal, V. Boswell, M., Pasqulai, A., Beldorth, I., Warren, W., Schartl, M, Cresko, W.A., and R.B. Walter (2013). Comparative Biochemistry & Physiology, Part D, 8: 11-16. doi: 10.1016/j.cbd.2012.10.006. PMID: 23201534

Supplemental Data

 


 

2012

RNA-Seq reveals complex genetic response to Deepwater Horizon oil release in Fundulus grandis

Garcia, T.I., Shen, Y., Whitehead, A., Oleksiak, M., Crawford, D.C., and R.B. Walter (2012). BMC Genomics, 13:474-483. 13:474-483. doi: 10.1186/1471-2164-13-474. PMID: 22971268

Supplemental Data

 

Effects of Short Read Quality and Quantity on a de novo Vertebrate Transcriptome Assembly.

Garcia, T.I., Shen, Y., Catchen, J., Amores, A., Schartl, M., Postlethwait, J., and R.B. Walter (2012).  Comp. Biochem. & Physiology, Part C, 155:95-101. doi: 10.1016/j.cbpc.2011.05.012

Supplemental Data

 

Characterization of telomeres and telomerase expression in Xiphophorus.

Kevin P. Downs, Yingjia Shen, Amanda Pasquali, Ion Beldorth, Markita Savage, Katelyn Gallier, Tzintzuni Garcia, Rachell E. Booth, and Ronald B. Walter. Comparative Biochemistry and Physiology: Part C, 155:89-94. doi: 10.1016/j.cbpc.2011.05.005. PMID:21619941

Supplemental Data

 

Identification of Robust Hypoxia Biomarker Candidates from Fin and other Organs of Medaka (Oryzias latipes)

Zhang, Z., Wells, M.C., Boswell, M.G., Beldorth, I., Kirk, L.M., Wang, Y., Wang, S., Savage, M., Walter, R.B., and R.E. Booth  (2012). Comparative Biochemistry & Physiology, Part C, 155:11-17. doi: 10.1016/ j.cbpc.2011.05.015. PMID: 21664487

Supplemental Data

 

Genomic and Physiological Footprint of the Deepwater Horizon Oil Spill on Resident Marsh Fishes

Whitehead, A., Dubansky, B., Bodiner, C., Garcia, T., Miles, S., Pilley, C., Raghunathan, V., Roach, J., Walker, N., Walter, R.B., Rice, C.D., and F. Glavez  (2012).  Proceedings of the National Academy of Sciences (USA), 109(50): 20298-20302. doi: 10.1073/pnas.1109545108, PMID:21949382

Supplemental Data

 


 

2011

Transcriptome analysis of female and male Xiphophorus maculatus Jp 163 A

Ziping Z., Wang, Y., Wang, S., Liu, J., Warren, W., Mitreva, M., and R.B. Walter (2011). PLoS ONE, 6(4): 1-6, e18379. doi: 10.1371/journal.pone.0018379

 Supplemental Data


 

2009

Comparison of gene expression responses to hypoxia in viviparous (Xiphophorus) and oviparous (Oryzias) fishes using a medaka microarray

Mikki G. Boswell, Melissa C. Wells, Lyndsey M. Kirk, Zhenlin Ju, Ziping Zhang, Rachell E. Booth, Ronald B. Walter (2009). CBP, Part C 149, 258-265. doi: 10.1016/j.cbpc.2008.11.005

                   Supplemental Data

 




2004

A Microsatellite Genetic Linkage Map for Xiphophorus

Walter, R. B., Rains, J. D., Russell, J. E., Guerra, T. M., Daniels, C., Johnston, D. A., Kumar, J., Wheeler, A., Kelnar, K., Khanolkar, V. A., et al. (2004). Genetics 168, 363-372.

Putative Homologues Derived from Xiphophorus Mapped DNA Sequences Containing Microsatellites

Summary of Xiphophorus Genetic Linkage Map

Info & Metrics

 


 

1999

Intragenic Sex-Chromosomal Crossovers of Xmrk Oncogene Alleles Affect Pigment Pattern Formation and the Severity of Melanoma in Xiphophorus.

Gutbrod, H., and Schartl, M. (1999). Genetics. (1999). 151(2): 773-783.

Primers used in Gutbrod and Schartl article

Map of Onc-Xmrk (Xmrk-2) with the primer positions(supplements Genetics. 1999 Feb;151(2):773-83.) Click on image below for primer sites


 

Contributions to this website in the form of experimental data from researchers is both welcome and encouraged. Materials should be forwarded to:

Ronald Walter
Texas State University
601 University Drive
419 Centennial Hall
San Marcos TX 78666-4616
Phone: (512) 245-0357
Fax: (512) 245-1922