Ken Jones, PhD

Publications

• Zakas C, Schult N, McHugh D, Jones KL, Wares JP (2012) Transcriptome analysis and SNP development can resolve population differentiation of Streblospio benedicti, a developmentally dimorphic marine annelid. PLoS ONE 7(2): e31613. doi:10.1371/journal.pone.0031613
• Darby BJ , Jones KL , Wheeler D, Herman MA (2011) Normalization and centering of array-based heterologous genome hybridization between species of unknown or unequal divergence. BMC Bioinformatics, DOI: 10.1186/1471-2105-12-183.
• Hui N, Jumpponen A, Niskanen T, Liimatainen K, Jones KL, Koivula T, Romantschuk M, Strömmer R (2011) EcM fungal community structure, but not diversity, altered in a Pb-contaminated shooting range in a boreal coniferous forest site in Southern Finland. FEMS Microbiology Ecology, 76:121–132.
• McDougal JN, Jones KL, Fatuyi B, Gray KJ, Blount BC, Valentín-Blasini L, Fisher JW (2011) The effects of perchlorate on thyroidal gene expression are different from the effects of iodide deficiency. Journal of Toxicology and Environmental Health, Part A, 74:917-926.
• Norrell A, Crawley D, Jones KL, Saillant EA (2014) Development and characterization of eighty-four microsatellite markers for the red snapper (Lutjanus campechanus) using Illumina paired-end sequencing. Aquaculture, http://dx.doi.org/10.1016/j.aquaculture.2014.04.005.
• Jenkins TM, Eaton TD, Nunziata SO, Lance SL, Jones KL (2013) Paired-end illumina shotgun sequencing used to develop the first microsatellite primers for Megacopta cribraria (F.) (Hemiptera: Heteroptera: Plataspidae). Journal of Entomological Science. 48:345-351.
• Rabeling C, Bollazzi M, Bacci Jr. M, Beasley RR, Lance SL, Jones KL, Pierce NE (2013) Development and characterization of twenty-two polymorphic microsatellite markers for the leafcutter ant, Acromyrmex lundii, utilizing Illumina sequencing. Conservation Genetics Resources. DOI: 10.1007/s12686-013-0078-3
• Parmakelis A, Balanika K, Terzopoulou S, Rigal F, Beasley RR, Jones KL, Lance SL, Whittaker RJ, Triantis KA, Borges PAV (2013) Development of 28 polymorphic microsatellite markers for the endemic Azorean spider Sancus acoreensis (Araneae, Tetragnathidae). Conservation Genetics Resources. DOI: 10.1007/s12686-013-9976-7
• Love CN, Flynn RW, Nunziata SO, Jones KL, Lance SL (2013) Development of 31 polymorphic microsatellite markers for the mole salamander (Ambystoma talpoideum) using Illumina paired-end sequencing. Conservation Genetics Resources. DOI: 10.1007/s12686-013-9940-6
• Krapu GL, Brandt DA, Jones KL, Johnson DH (2011) Geographic distribution of the mid-continent population of sandhill cranes and related management applications. Wildlife Monogr., 175:1-38.
• Henkel JR, Jones KL, Hereford SG, Savoie ML, Leibo SP, Howard JJ (2011) Integrating microsatellite and pedigree analyses to facilitate the captive management of the endangered Mississippi sandhill crane (Grus canadensis pulla). Zoo Biology, DOI: 10.1002/zoo.20399.
• O’Bryhim J, Chong JP, Lance SL, Jones KL, Roe KJ. Development and characterization of sixteen microsatellite markers for the federally endangered species: Leptodea leptodon (Bivalvia: Unionidae) using paired-end Illumina shotgun sequencing. In press with Conservation Genetics Resources.
• Castoe TA, Poole AW, de Koning APJ, Jones KL, Tomback DF, Oyler-McCance SJ, Fike JA, Lance SL, Streicher JW, Smith EN, Pollock DD (2012) Rapid microsatellite identification from Illumina paired-end genomic sequencing in two birds and a snake. PLoS ONE 7(2): e30953. doi:10.1371/journal.pone.0030953
• Barthelmess EL, Love CN, Jones KL, Lance SL (2013) Development of polymorphic microsatellite markers for the North American porcupine, Erethizon dorsatum, using paired-end Illumina sequencing. Conservation Genetics Resources. DOI: 10.1007/s12686-013-9933-5
• Allen JM, Obae SG, Brand MH, Silander JA, Jones KL, Nunziata SO, Lance SL. Development and characterization of microsatellite markers for Berberis thunbergii (Berberidaceae). In press with American Journal of Botany.
• Carson EW, Beasley RR, Jones KL, Lance SL, Lozano-Vilano M, Vela-Valladares L, Banda-Villanueva I, Turner TF, Maza-Benignos M (2013) Development of polymorphic microsatellite markers for the microendemic pupfishes Cyprinodon julimes and C. pachycephalus. Conservation Genetics Resources. DOI: 10.1007/s12686-013-9925-5
• Harrison E, Love CN, Jones KL, Lance SL, Trexler JC, Collins T (2013) Isolation and characterization of 18 novel polymorphic microsatellite markers from the Mayan cichlid (Cichlasoma urophthalmus). Conservation Genetics Resources. DOI:10.1007/s12686-013-9886-8
• Nunziata SO, Karron JD, Mitchell RJ, Lance SL, Jones KL, Trapnell DW (2013) Characterization of 42 polymorphic microsatellite loci in Mimulus ringens (Phrymaceae) using Illumina sequencing. American Journal of Botany, 99:e477-480.
• Nunziata SO, Lance SL, Jones KL, Nerkowski SA, Metcalf AE (2013) Development and characterization of twenty-three microsatellite markers for the freshwater minnow Santa Ana speckled dace (Rhinichthys osculus spp., Cyprinidae) using paired-end Illumina shotgun sequencing. Conservation Genetics Resources, 5:145-148
• O’Bryhim J , Somers C, Lance SL, Yau M, Boreham DR, Jones KL, Taylor EB (2013) Development and characterization of twenty-two novel microsatellite markers for the mountain whitefish, Prosopium williamsoni and cross-amplification in the round whitefish, P. cylindraceum, using paired-end Illumina shotgun sequencing. Conservation Genetics Resources, 5:89-91.
• Tew JM, Lance SL, Jones KL, Fehlberg SD (2012) Microsatellite development for an endangered riparian inhabitant, Lilaeopsis schaffneriana subsp. recurva (Apiaceae). American Journal of Botany, 99:e164-6.
• Nunziata SO, Richter SC, Denton RD, Yeiser JM, Wells DE, Jones KL, Hagen C, Lance SL (2011) Fourteen novel microsatellite markers for the gopher frog, Lithobates capito (Amphibia: Ranidae). Conservation Genetics Resources, 4:201-203.
• Matesanz S, Sultan SE, Jones KL, Hagen C, Lance SL (2011) Development and characterization of microsatellite markers for Polygonum cespitosum (Polygonaceae). American Journal of Botany, 98:e180-182.
• Mckee AM, Lance SL, Jones KL, Hagen C, Glenn TC (2011) Development and characterization of 12 microsatellite loci for the Dwarf Salamander, Eurycea quadridigitata. Conservation Genetics Resources, 3:633-635.
• Nunziata SO, Scott DE, Jones KL, Hagen C, Lance SL (2011) Twelve novel microsatellite markers for the marbled salamander, Ambystoma opacum. Conservation Genetics Resources, 3:773-775.
• O’Bryhim J, Chong JP, Lance SL, Jones KL, Roe KJ (2013) Development and characterization of sixteen microsatellite markers for the federally endangered species: Leptodea leptodon (Bivalvia: Unionidae) using paired-end Illumina shotgun sequencing. Conservation Genetics Resources, 4:787-789.
• Breton JS, Olivera K, Drew RE, Jones KL, Hagen C, Lance SL (2011) Development and characterization of ten polymorphic microsatellite loci in the yellowtail flounder (Limanda ferruginea). Conservation Genetics Resources, 3:369-371.
• Purcell KM, Lance SL, Jones KL, Stockwell CA (2011) Ten novel microsatellite markers for the western mosquitofish Gambusia affinis. Conservation Genetics Resources, 3:361-363.
• Zakas C, Schult N, McHugh D, Jones KL, Wares JP (2012) Transcriptome analysis and SNP development can resolve population differentiation of Streblospio benedicti, a developmentally dimorphic marine annelid. PLoS ONE 7(2): e31613. doi:10.1371/journal.pone.0031613
• Castoe TA, Poole AW, de Koning APJ, Jones KL, Tomback DF, Oyler-McCance SJ, Fike JA, Lance SL, Streicher JW, Smith EN, Pollock DD (2012) Rapid microsatellite identification from Illumina paired-end genomic sequencing in two birds and a snake. PLoS ONE 7(2): e30953. doi:10.1371/journal.pone.0030953
• Lance SL, Love CN, Nunziata SO, O'Bryhim JR, Scott DE, Flynn RW, Jones KL. 32 species validation of a new Illumina paired-end approach for the development of microsatellites. PLoS One. 2013;8(11):e81853. PubMed PMID: 24312368
• Coolon JD, Jones KL, Todd TC, Blair JM, Herman MA. Long-term nitrogen amendment alters the diversity and assemblage of soil bacterial communities in tallgrass prairie. PLoS One. 2013;8(6):e67884. PubMed PMID: 23840782
• Graham BB, Chabon J, Kumar R, Kolosionek E, Gebreab L, Debella E, Edwards M, Diener K, Shade T, Bifeng G, Bandeira A, Butrous G, Jones K, Geraci M, Tuder RM. Protective role of IL-6 in vascular remodeling in Schistosoma pulmonary hypertension. Am J Respir Cell Mol Biol. 2013 Dec;49(6):951-9. PubMed PMID: 23815102
• Campbell N, Sinagra G, Jones KL, Slavov D, Gowan K, Merlo M, Carniel E, Fain PR, Aragona P, Di Lenarda A, Mestroni L, Taylor MR. Whole exome sequencing identifies a troponin T mutation hot spot in familial dilated cardiomyopathy. PLoS One. 2013;8(10):e78104. PubMed PMID: 24205113
• Harmacek L, Watkins-Chow DE, Chen J, Jones KL, Pavan WJ, Salbaum JM, Niswander L. A unique missense allele of BAF155, a core BAF chromatin remodeling complex protein, causes neural tube closure defects in mice. Dev Neurobiol. 2014 May;74(5):483-97. PubMed PMID: 24170322
• Baird NL, Bowlin JL, Cohrs RJ, Gilden D, Jones KL. Comparison of VZV RNA sequences in human neurons and fibroblasts. J Virol. 2014 Mar 5. [Epub ahead of print] PubMed PMID: 24600007
• Tew JM, Lance SL, Jones KL, Fehlberg SD (2012) Microsatellite development for an endangered riparian inhabitant, Lilaeopsis schaffneriana subsp. recurva (Apiaceae). American Journal of Botany, 99:e164-6.
• Allen JM, Obae SG, Brand MH, Silander JA, Jones KL, Nunziata SO, Lance SL (2012) Development and characterization of microsatellite markers for Berberis thunbergii (Berberidaceae). American Journal of Botany. 99:e220-222.
• Stoutamore JL, Love CN, Lance SL, Jones KL, Tallmon D (2012) Development of polymorphic microsatellite markers for blue king crab (Paralithodes platypus). Conservation Genetics Resources, 4:897-899.
• Feldman AM, Begay RL, Knezevic T, Myers VD, Slavov DB, Zhu W, Gowan K, Graw SL, Jones KL, Tilley DG, Coleman RC, Walinsky P, Cheung JY, Mestroni L, Khalili K, Taylor MR. Decreased Levels of BAG3 in a Family With a Rare Variant and in Idiopathic Dilated Cardiomyopathy. J Cell Physiol. 2014 Mar 13. [Epub ahead of print] PubMed PMID: 24623017
• Maycotte P, Jones KL, Goodall ML, Thorburn J, Thorburn A. Autophagy Supports Breast Cancer Stem Cell Maintenance by Regulating IL6 Secretion. Mol Cancer Res. 2015 Jan 8. [Epub ahead of print] PubMed PMID: 25573951
• Baschal EE, Wethey CI, Swindle K, Baschal RM, Gowan K, Tang NL, Alvarado DM, Haller GE, Dobbs MB, Taylor MR, Gurnett CA, Jones KL, Miller NH. Exome sequencing identifies a rare HSPG2 variant associated with familial idiopathic scoliosis. G3 (Bethesda). 2014 Dec 12;5(2):167-74. PubMed PMID: 25504735
• Love CN, Hagen C, Horne BD, Jones KL, Lance SL (2012) Development and characterization of thirty novel microsatellite markers for the critically endangered Myanmar Roofed Turtle, Batagur trivittata, and cross-amplification in the Painted River Terrapin, B. borneoensis, and the Southern River Terrapin, B. affinis, using paired-end Illumina shotgun sequencing Conservation Genetics Resources, DOI 10.1007/s12686-012-9809-0
• Fong N, Kim H, Zhou Y, Ji X, Qiu J, Saldi T, Diener K, Jones K, Fu XD, Bentley DL. Pre-mRNA splicing is facilitated by an optimal RNA polymerase II elongation rate. Genes Dev. 2014 Dec 1;28(23):2663-76. PubMed PMID: 25452276
• O’Bryhim J, Chong JP, Lance SL, Jones KL, Roe KJ (2013) Development and characterization of sixteen microsatellite markers for the federally endangered species: Leptodea leptodon (Bivalvia: Unionidae) using paired-end Illumina shotgun sequencing. Conservation Genetics Resources, 4:787-789.
• O’BryhimJ , Somers C, Lance SL, Yau M, Boreham DR, Jones KL, Taylor EB (2013) Development and characterization of twenty-two novel microsatellite markers for the mountain whitefish, Prosopium williamsoni and cross-amplification in the round whitefish, P. cylindraceum, using paired-end Illumina shotgun sequencing. Conservation Genetics Resources, 5:89-91.
• Feldman AM, Begay RL, Knezevic T, Myers VD, Slavov DB, Zhu W, Gowan K, Graw SL, Jones KL, Tilley DG, Coleman RC, Walinsky P, Cheung JY, Mestroni L, Khalili K, Taylor MR. Decreased levels of BAG3 in a family with a rare variant and in idiopathic dilated cardiomyopathy. J Cell Physiol. 2014 Nov;229(11):1697-702. PubMed PMID: 24623017
• Nunziata SO, Lance SL, Jones KL, Nerkowski SA, Metcalf AE (2013) Development and characterization of twenty-three microsatellite markers for the freshwater minnow Santa Ana speckled dace (Rhinichthys osculus spp., Cyprinidae) using paired-end Illumina shotgun sequencing characterization of twenty-three microsatellite markers for the freshwater minnow Santa Ana. Conservation Genetics Resources, 5:145-148
• Jones-Carson J, Zweifel AE, Tapscott T, Austin C, Brown JM, Jones KL, Voskuil MI, Vázquez-Torres A. Nitric oxide from IFN?-primed macrophages modulates the antimicrobial activity of ß-lactams against the intracellular pathogens Burkholderia pseudomallei and Nontyphoidal Salmonella. PLoS Negl Trop Dis. 2014 Aug;8(8):e3079. PubMed PMID: 25121731
• Nunziata SO, Karron JD, Mitchell RJ, Lance SL, Jones KL, Trapnell DW (2013) Characterization of 42 polymorphic microsatellite loci in Mimulus ringens (Phrymaceae) using Illumina sequencing. American Journal of Botany, 99:e477-480.
• Harmacek L, Watkins-Chow DE, Chen J, Jones KL, Pavan WJ, Salbaum JM, Niswander L. A unique missense allele of BAF155, a core BAF chromatin remodeling complex protein, causes neural tube closure defects in mice. Dev Neurobiol. 2014 May;74(5):483-97. PubMed PMID: 24170322
• Harrison E, Love CN, Jones KL, Lance SL, Trexler JC, Collins T (2013) Isolation and characterization of 18 novel polymorphic microsatellite markers from the Mayan cichlid (Cichlasoma urophthalmus). In press with Conservation Genetics Resources.
• Baird NL, Bowlin JL, Cohrs RJ, Gilden D, Jones KL. Comparison of varicella-zoster virus RNA sequences in human neurons and fibroblasts. J Virol. 2014 May;88(10):5877-80. PubMed PMID: 24600007
• Zakas C, Jones K, Wares JP. Homogeneous nuclear background for mitochondrial cline in northern range of Notochthamalus scabrosus. G3 (Bethesda). 2014 Feb 19;4(2):225-30. PubMed PMID: 24347623
• Noetzli L, Lo RW, Lee-Sherick AB, Callaghan M, Noris P, Savoia A, Rajpurkar M, Jones K, Gowan K, Balduini CL, Pecci A, Gnan C, De Rocco D, Doubek M, Li L, Lu L, Leung R, Landolt-Marticorena C, Hunger S, Heller P, Gutierrez-Hartmann A, Xiayuan L, Pluthero FG, Rowley JW, Weyrich AS, Kahr WH, Porter CC, Di Paola J. Germline mutations in ETV6 are associated with thrombocytopenia, red cell macrocytosis and predisposition to lymphoblastic leukemia. Nat Genet. 2015 Mar 25. [Epub ahead of print] PubMed PMID: 25807284
• Jumpponen A and Jones KL (2014) Tallgrass prairie soil fungal communities are resilient to climate change. Fungal Ecology, 10:44-57.
• Norrell A, Crawley D, Jones KL, Saillant EA (2014) Development and characterization of eighty-four microsatellite markers for the red snapper (Lutjanus campechanus) using Illumina paired-end sequencing. Aquaculture, http://dx.doi.org/10.1016/j.aquaculture.2014.04.005.
• Rabeling C, Bollazzi M, Bacci Jr. M, Beasley RL, Lance SL, Jones KL, Pierce NE (2014) Development and characterization of twenty-two polymorphic microsatellite markers for the leafcutter ant, Acromyrmex lundii, utilizing Illumina sequencing. Conservation Genetics Resources, 6:319-322.
• Beasley RR, Lance SL, Jones KL, Berry RB, Johnson JA (2014) Development of polymorphic microsatellite markers for the orange-breasted falcon (Falco deiroleucus). Conservation Genetics Resources, 6:743-745.
• D’Elía G, Beasley RR, Lance SL, Jones KL, Bacigalupe LD (2014) Development of polymorphic microsatellite markers for the Pleuroderma thaul. Conservation Genetics Resources, 6:747-749.
• Ferrada-Fuentes S, Galleguillos R, Canales-Aguirre CB, Love CN, Jones KL, Lance SL (2014) Development and characterization of thirty-three microsatellite markers for the Patagonian sprat, Sprattus fuegensis (Jenyns, 1842), using paired-end Illumina shotgun sequencing. Conservation Genetics Resources, 6:833-836.
• Price KA, O’Bryhim JR, Jones KL, Lance SL (2014) Development of polymorphic microsatellite markers for the bonnethead shark, Sphyrna tiburo. Conservation Genetics Resources, DOI :10.1007/s12686-014-0289-2
• Worsley-Tonks KEL, Lance SL, Beasley RR, Jones KL, Ezenwa VO (2014) Development and characterization of 30 novel microsatellite markers for Grant’s gazelle (Nanger granti). Conservation Genetics Resources, DOI:10.1007/s12686-014-0339-9.
• Hayashi M, Jin Y, Yorgov D, Santorico SA, Hagman J, Ferrara TM, Jones KL, Cavalli G, Dinarello CA, Spritz RA. Autoimmune vitiligo is associated with gain-of-function by a transcriptional regulator that elevates expression of HLA-A*02:01 in vivo. Proc Natl Acad Sci U S A. 2016 Jan 19. [Epub ahead of print] PubMed PMID: 26787886
• Chen Z, Elos MT, Viboolsittiseri SS, Gowan K, Leach SM, Rice M, Eder MD, Jones K, Wang JH. Combined deletion of Xrcc4 and Trp53 in mouse germinal center B cells leads to novel B cell lymphomas with clonal heterogeneity. J Hematol Oncol. 2016 Jan 7;9(1):2. PubMed PMID: 26740101
• Van Otterloo E, Feng W, Jones KL, Hynes NE, Clouthier DE, Niswander L, Williams T. MEMO1 drives cranial endochondral ossification and palatogenesis. Dev Biol. 2015 Dec 31. [Epub ahead of print] PubMed PMID: 26746790
• Henderson HH, Timberlake KB, Austin ZA, Badani H, Sanford B, Tremblay K, Baird NL, Jones K, Rovnak J, Frietze S, Gilden D, Cohrs RJ. Occupancy of RNA Polymerase II Phosphorylated on Serine 5 (RNAP S5P) and RNAP S2P on Varicella-Zoster Virus Genes 9, 51, and 66 Is Independent of Transcript Abundance and Polymerase Location within the Gene. J Virol. 2015 Nov 11;90(3):1231-43. PubMed PMID: 26559844
• Begay RL, Graw S, Sinagra G, Merlo M, Slavov D, Gowan K, Jones KL, Barbati G, Spezzacatene A, Brun F, Di Lenarda A, Smith JE, Granzier HL, Mestroni L, Taylor M. Role of Titin Missense Variants in Dilated Cardiomyopathy. J Am Heart Assoc. 2015 Nov 13;4(11). PubMed PMID: 26567375
• Chen Z, Gowan K, Leach S, Viboolsittiseri S, Mishra A, Kadoishi T, Diener K, Gao B, Jones K, Wang J (2016) Unexpected effects of different genetic backgrounds on identification of genomic rearrangements via whole-genome next generation sequencing. BMC Genomics. 17:823.
• Bradford AP, Jones K, Kechris K, Chosich J, Montague M, Warren WC, May MC, Al-Safi Z, Kuokkanen S, Appt SE, Polotsky AJ. Joint MiRNA/mRNA expression profiling reveals changes consistent with development of dysfunctional corpus luteum after weight gain. PLoS One. 2015;10(8):e0135163. PubMed PMID: 26258540
• Zhao Y, Londono P, Cao Y, Sharpe EJ, Proenza C, O'Rourke R, Jones KL, Jeong MY, Walker LA, Buttrick PM, McKinsey TA, Song K. High-efficiency reprogramming of fibroblasts into cardiomyocytes requires suppression of pro-fibrotic signalling. Nat Commun. 2015 Sep 10;6:8243. PubMed PMID: 26354680
• Begay R, Tharp C, Martin A, Graw S, Sinagra G, Miani D, Sweet M, Slavov D, Stafford N, Zeller M, Alnefaie R, Rowland T, Brun F, Jones K, Gowan K, Mestroni L, Garrity D, Taylor M (2016) FLNC Gene Splice Mutations Cause Dilated Cardiomyopathy. JACC: Basic to Translational Science. DOI: 10.1016/j.jacbts.2016.05.004
• Noetzli L, Lo RW, Lee-Sherick AB, Callaghan M, Noris P, Savoia A, Rajpurkar M, Jones K, Gowan K, Balduini CL, Pecci A, Gnan C, De Rocco D, Doubek M, Li L, Lu L, Leung R, Landolt-Marticorena C, Hunger S, Heller P, Gutierrez-Hartmann A, Xiayuan L, Pluthero FG, Rowley JW, Weyrich AS, Kahr WH, Porter CC, Di Paola J. Germline mutations in ETV6 are associated with thrombocytopenia, red cell macrocytosis and predisposition to lymphoblastic leukemia. Nat Genet. 2015 May;47(5):535-8. PubMed PMID: 25807284
• Brinkley J, Fisher S, Harris M, Holmes G, Hooper J, Wang Jabs E, Jones K, Kesselman C, Klein O, Maas R, Marazita M, Selleri L, Spritz R, van Bakel H, Visel A, Williams T, Wysocka J, Chai Y (2016) The FaceBase Consortium: A comprehensive resource for craniofacial researchers. Development. doi: 10.1242/dev.135434
• Fernández-Cabezudo MJ, Faour I, Jones K, Champagne DP, Jaloudi MA, Mohamed YA, Bashir G, Almarzooqi S, Albawardi A, Hashim MJ, Roberts TS, El-Salhat H, El-Taji H, Kassis A, O’Sullivan DE, Christensen BC, DeGregori J, al-Ramadi BK, Rincon M (2016) Deficiency of mitochondrial modulator MCJ/DNAJC15 promotes chemoresistance in breast cancer. Journal of Clinical Investigation Insight. 1: e86873.
• Cole JB, Manyama MF, Kimwaga E, Mathayo J, Larson J, Liberton DK, Lukowiak K, Ferrara TM, Riccardi SL, Li M, Mio W, Prochazkova M, Klein O, Williams T, Li H, Jones KL, Santorico SA, Hallgrimsson B, Spritz RA (2016) Genomewide association study of facial variation in African children identifies association of SCHIP1 and PDE8A with facial size. Plos Genetics. http://dx.doi.org/10.1371/journal.pgen.1006174
• Yang X, Noyes N, Doster E, Martin J, Linke L, Magnuson R, Yang H, Geornaras I, Woerner D, Jones K, Ruiz J, Boucher C, Morley P, Belk K (2016) Use of metagenomic shotgun sequencing technology to detect foodborne pathogens within their microbiome in beef production chain. Applied and Environmental Microbiology. doi: 10.1128/AEM.00078-16
• Noyes N, Yang X, Linke L, Magnuson R, Dettenwanger A, Cook S, Geornaras I, Woerner D, Gow S, McAllister T, Yang H, Ruiz J, Jones K, Boucher C, Morley P, Belk K (2016) Resistome diversity in cattle and the environment decreases during beef production. eLife. 5:e13195. doi: 10.7554/eLife.13195.
• Hayashi M, Jin Y, Yorgov D, Santorico SA, Hagman J, Ferrara TM, Jones KL, Cavalli G, Dinarello CA, Spritz RA (2016) Autoimmune vitiligo is associated with gain-of-function by a transcriptional regulator that elevates expression of HLA-A*02:01 in vivo. Proceedings of the National Academy of Science, doi:10.1073/pnas.1525001113
• Maycotte P, Jones KL, Goodall ML, Thorburn J, Thorburn A. Autophagy Supports Breast Cancer Stem Cell Maintenance by Regulating IL6 Secretion. Mol Cancer Res. 2015 Apr;13(4):651-8. PubMed PMID: 25573951
• Chen Z, Elos MT, Viboolsittiseri SS, Gowan K, Leach SM, Rice M, Eder MD, Jones K, Wang JH (2016) Combined deletion of Xrcc4 and Trp53 in mouse germinal center B cells leads to novel B cell lymphomas with clonal heterogeneity. Journal of hematology & oncology, doi:10. 1186/ s13045-015-0230-5.
• Van Otterloo E, Feng W, Jones KL, Hynes NE, Clouthier DE, Niswander L, Williams T (2016) MEMO1 drives cranial endochondral ossification and palatogenesis. Developmental Biology. http://dx.doi.org/10.1016/j.ydbio.2015.12.024i
• Oyler-McCance SJ, Cornman RS, Jones KL, Fike JA. Z chromosome divergence, polymorphism and relative effective population size in a genus of lekking birds. Heredity (Edinb). 2015 Nov;115(5):452-9. PubMed PMID: 26014526
• Oyler-McCance S, Cornman R, Jones K, Fike J (2015) Genomic single-nucleotide polymorphisms confirm that Gunnison and Greater sage-grouse are genetically well differentiated and that the Bi- State population is distinct. Condor, 117:217-227.
• Lummus SC, Donson AM, Gowan K, Jones KL, Vibhakar R, Foreman NK, Kleinschmidt-DeMasters BK. p16 Loss and E2F/cell cycle deregulation in infant posterior fossa ependymoma. Pediatr Blood Cancer. 2017 Dec;64(12). PubMed PMID: 28548702
• O’Bryhim JR, Spaet J, Hyde JR, Jones KL, Adams DH, Lance SL (2015) Development of microsatellite markers for globally distributed populations of the threatened silky shark, Carcharhinus falciformis. Conservation Genetics Resources 7:463-465.
• 56. Unger S, Abernethy E, Lance S, Beasley R, Kimball B, McAuliffe T, Jones K, Rhodes (2015) Development and characterization of 33 novel polymorphic microsatellite markers for the brown tree snake Boiga irregularis. BMC Research Notes, 8:658.
• Trapnell DW, Beasley RR, Lance SL, Field AR, Jones KL (2015) Characterization of microsatellite loci for an Australian epiphytic orchid, Dendrobium calamiforme, using Illumina sequencing. Applications in Plant Sciences, 3:1500016.
• Worsley-Tonks KEL, Lance SL, Beasley RR, Jones KL, Ezenwa VO (2015) Development and characterization of 30 novel microsatellite markers for Grant’s gazelle (Nanger granti). Conservation Genetics Resources, DOI:10.1007/s12686-014-0339-9.
• Cohrs RJ, Lee KS, Beach A, Sanford B, Baird NL, Como C, Graybill C, Jones D, Tekeste E, Ballard M, Chen X, Yalacki D, Frietze S, Jones K, Lenac Rovis T, Jonjic S, Haas J, Gilden D. Targeted Genome Sequencing Reveals Varicella-Zoster Virus Open Reading Frame 12 Deletion. J Virol. 2017 Oct 15;91(20). PubMed PMID: 28747504
• Price KA, O’Bryhim JR, Jones KL, Lance SL (2015) Development of polymorphic microsatellite markers for the bonnethead shark, Sphyrna tiburo. Conservation Genetics Resources, DOI :10.1007/s12686-014-0289-2
• Griesinger AM, Witt DA, Grob ST, Georgio Westover SR, Donson AM, Sanford B, Mulcahy Levy JM, Wong R, Moreira DC, DeSisto JA, Balakrishnan I, Hoffman LM, Handler MH, Jones KL, Vibhakar R, Venkataraman S, Foreman NK. NF-?B upregulation through epigenetic silencing of LDOC1 drives tumor biology and specific immunophenotype in Group A ependymoma. Neuro Oncol. 2017 Oct 1;19(10):1350-1360. PubMed PMID: 28510691
• Lavin M, Aguila S, Schneppenheim S, Dalton N, Jones KL, O'Sullivan JM, O'Connell NM, Ryan K, White B, Byrne M, Rafferty M, Doyle MM, Nolan M, Preston RJS, Budde U, James P, Di Paola J, O'Donnell JS. Novel insights into the clinical phenotype and pathophysiology underlying low VWF levels. Blood. 2017 Sep 15. [Epub ahead of print] PubMed PMID: 28916584
• Astling DP, Heft IE, Jones KL, Sikela JM. High resolution measurement of DUF1220 domain copy number from whole genome sequence data. BMC Genomics. 2017 Aug 14;18(1):614. PubMed PMID: 28807002
• Zhou K, Spillman MA, Behbakht K, Komatsu JM, Abrahante JE, Hicks D, Schotl B, Odean E, Jones KL, Graner MW, Bemis LT. A method for extracting and characterizing RNA from urine: For downstream PCR and RNAseq analysis. Anal Biochem. 2017 Aug 10;536:8-15. [Epub ahead of print] PubMed PMID: 28803886
• Santonastaso T, Lighten J, van Oosterhout C, Jones KL, Foufopoulos J, Anthony NM. The effects of historical fragmentation on major histocompatibility complex class II ß and microsatellite variation in the Aegean island reptile, Podarcis erhardii . Ecol Evol. 2017 Jul;7(13):4568-4581. PubMed PMID: 28690787
• Hashem SI, Murphy AN, Divakaruni AS, Klos ML, Nelson BC, Gault EC, Rowland TJ, Perry CN, Gu Y, Dalton ND, Bradford WH, Devaney EJ, Peterson KL, Jones KL, Taylor MRG, Chen J, Chi NC, Adler ED. Impaired mitophagy facilitates mitochondrial damage in Danon disease. J Mol Cell Cardiol. 2017 Jul;108:86-94. PubMed PMID: 28526246
• Chen Y, Anastassiadis K, Kranz A, Stewart AF, Arndt K, Waskow C, Yokoyama A, Jones K, Neff T, Lee Y, Ernst P. MLL2, Not MLL1, Plays a Major Role in Sustaining MLL-Rearranged Acute Myeloid Leukemia. Cancer Cell. 2017 Jun 12;31(6):755-770.e6. PubMed PMID: 28609655
• Hazegh KE, Nemkov T, D'Alessandro A, Diller JD, Monks J, McManaman JL, Jones KL, Hansen KC, Reis T. An autonomous metabolic role for Spen. PLoS Genet. 2017 Jun;13(6):e1006859. PubMed PMID: 28640815
• Hooper JE, Feng W, Li H, Leach SM, Phang T, Siska C, Jones KL, Spritz RA, Hunter LE, Williams T. Systems biology of facial development: contributions of ectoderm and mesenchyme. Dev Biol. 2017 Jun 1;426(1):97-114. PubMed PMID: 28363736
• Michels AW, Landry LG, McDaniel KA, Yu L, Campbell-Thompson M, Kwok WW, Jones KL, Gottlieb PA, Kappler JW, Tang Q, Roep BO, Atkinson MA, Mathews CE, Nakayama M. Islet-Derived CD4 T Cells Targeting Proinsulin in Human Autoimmune Diabetes. Diabetes. 2017 Mar;66(3):722-734. PubMed PMID: 27920090
• Park KU, Randazzo G, Jones KL, Brzezinski JA 4th. Gsg1, Trnp1, and Tmem215 Mark Subpopulations of Bipolar Interneurons in the Mouse Retina. Invest Ophthalmol Vis Sci. 2017 Feb 1;58(2):1137-1150. PubMed PMID: 28199486
• Lakin SM, Dean C, Noyes NR, Dettenwanger A, Ross AS, Doster E, Rovira P, Abdo Z, Jones KL, Ruiz J, Belk KE, Morley PS, Boucher C. MEGARes: an antimicrobial resistance database for high throughput sequencing. Nucleic Acids Res. 2017 Jan 4;45(D1):D574-D580. PubMed PMID: 27899569
• Sweet ME, Cocciolo A, Slavov D, Jones KL, Sweet JR, Graw SL, Reece TB, Ambardekar AV, Bristow MR, Mestroni L, Taylor MRG. Transcriptome analysis of human heart failure reveals dysregulated cell adhesion in dilated cardiomyopathy and activated immune pathways in ischemic heart failure. BMC Genomics. 2018 Nov 12;19(1):812. PubMed PMID: 30419824
• Chen Y, Jones KL, Anastassiadis K, Kranz A, Stewart AF, Grembecka J, Meyerson M, Ernst P. Distinct pathways affected by menin versus MLL1/MLL2 in MLL-rearranged acute myeloid leukemia. Exp Hematol. 2019 Jan;69:37-42. PubMed PMID: 30315824
• Parrish JK, McCann TS, Sechler M, Sobral LM, Ren W, Jones KL, Tan AC, Jedlicka P. The Jumonji-domain histone demethylase inhibitor JIB-04 deregulates oncogenic programs and increases DNA damage in Ewing Sarcoma, resulting in impaired cell proliferation and survival, and reduced tumor growth. Oncotarget. 2018 Sep 4;9(69):33110-33123. PubMed PMID: 30237855
• Begay RL, Graw SL, Sinagra G, Asimaki A, Rowland TJ, Slavov DB, Gowan K, Jones KL, Brun F, Merlo M, Miani D, Sweet M, Devaraj K, Wartchow EP, Gigli M, Puggia I, Salcedo EE, Garrity DM, Ambardekar AV, Buttrick P, Reece TB, Bristow MR, Saffitz JE, Mestroni L, Taylor MRG. Filamin C Truncation Mutations Are Associated With Arrhythmogenic Dilated Cardiomyopathy and Changes in the Cell-Cell Adhesion Structures. JACC Clin Electrophysiol. 2018 Apr;4(4):504-514. PubMed PMID: 30067491
• Davies KD, Le AT, Sheren J, Nijmeh H, Gowan K, Jones KL, Varella-Garcia M, Aisner DL, Doebele RC. Comparison of Molecular Testing Modalities for Detection of ROS1 Rearrangements in a Cohort of Positive Patient Samples. J Thorac Oncol. 2018 Oct;13(10):1474-1482. PubMed PMID: 29935306
• Baschal EE, Terhune EA, Wethey CI, Baschal RM, Robinson KD, Cuevas MT, Pradhan S, Sutphin BS, Taylor MRG, Gowan K, Pearson CG, Niswander LA, Jones KL, Miller NH. Idiopathic Scoliosis Families Highlight Actin-Based and Microtubule-Based Cellular Projections and Extracellular Matrix in Disease Etiology. G3 (Bethesda). 2018 Jul 31;8(8):2663-2672. PubMed PMID: 29930198
• Moreno RL, Williams K, Jones KL, Ribera AB. Investigation of Islet2a function in zebrafish embryos: Mutants and morphants differ in morphologic phenotypes and gene expression. PLoS One. 2018;13(6):e0199233. PubMed PMID: 29927984
• Kiseljak-Vassiliades K, Zhang Y, Kar A, Razzaghi R, Xu M, Gowan K, Raeburn CD, Albuja-Cruz M, Jones KL, Somerset H, Fishbein L, Leong S, Wierman ME. Elucidating the Role of the Maternal Embryonic Leucine Zipper Kinase in Adrenocortical Carcinoma. Endocrinology. 2018 Jul 1;159(7):2532-2544. PubMed PMID: 29790920
• Schmidt L, Taiyab A, Melvin VS, Jones KL, Williams T. Increased FGF8 signaling promotes chondrogenic rather than osteogenic development in the embryonic skull. Dis Model Mech. 2018 Jun 15;11(6). PubMed PMID: 29752281
• Hazegh KE, Nemkov T, D'Alessandro A, Diller JD, Monks J, McManaman JL, Jones KL, Hansen KC, Reis T. Correction: An autonomous metabolic role for Spen. PLoS Genet. 2018 Mar;14(3):e1007266. PubMed PMID: 29509756
• Kogut I, McCarthy SM, Pavlova M, Astling DP, Chen X, Jakimenko A, Jones KL, Getahun A, Cambier JC, Pasmooij AMG, Jonkman MF, Roop DR, Bilousova G. High-efficiency RNA-based reprogramming of human primary fibroblasts. Nat Commun. 2018 Feb 21;9(1):745. PubMed PMID: 29467427
• Kiseljak-Vassiliades K, Zhang Y, Bagby SM, Kar A, Pozdeyev N, Xu M, Gowan K, Sharma V, Raeburn CD, Albuja-Cruz M, Jones KL, Fishbein L, Schweppe RE, Somerset H, Pitts TM, Leong S, Wierman ME. Development of new preclinical models to advance adrenocortical carcinoma research. Endocr Relat Cancer. 2018 Apr;25(4):437-451. PubMed PMID: 29371329
• Gan T, Li BE, Mishra BP, Jones KL, Ernst P. MLL1 Promotes IL-7 Responsiveness and Survival during B Cell Differentiation. J Immunol. 2018 Mar 1;200(5):1682-1691. PubMed PMID: 29351999
• Witt DA, Donson AM, Amani V, Moreira DC, Sanford B, Hoffman LM, Handler MH, Levy JMM, Jones KL, Nellan A, Foreman NK, Griesinger AM. Specific expression of PD-L1 in RELA-fusion supratentorial ependymoma: Implications for PD-1-targeted therapy. Pediatr Blood Cancer. 2018 May;65(5):e26960. PubMed PMID: 29350470
• Van Otterloo E, Li H, Jones KL, Williams T. AP-2a and AP-2ß cooperatively orchestrate homeobox gene expression during branchial arch patterning. Development. 2018 Jan 25;145(2). PubMed PMID: 29229773
• Leary PJ, Kronmal RA, Bluemke DA, Buttrick PM, Jones KL, Kao DP, Kawut SM, Krieger EV, Lima JA, Minobe W, Ralph DD, Tedford RJ, Weiss NS, Bristow MR. Histamine H(2) Receptor Polymorphisms, Myocardial Transcripts, and Heart Failure (from the Multi-Ethnic Study of Atherosclerosis and Beta-Blocker Effect on Remodeling and Gene Expression Trial). Am J Cardiol. 2018 Jan 15;121(2):256-261. PubMed PMID: 29191567
• Goldstein NB, Koster MI, Jones KL, Gao B, Hoaglin LG, Robinson SE, Wright MJ, Birlea SI, Luman A, Lambert KA, Shellman YG, Fujita M, Robinson WA, Roop DR, Norris DA, Birlea SA. Repigmentation of Human Vitiligo Skin by NBUVB Is Controlled by Transcription of GLI1 and Activation of the ß-Catenin Pathway in the Hair Follicle Bulge Stem Cells. J Invest Dermatol. 2018 Mar;138(3):657-668. PubMed PMID: 29054607