Photo by Nathanael Herrera
2024 - in preparation
Zarn K, Roffler G, Kardos M, Good JM, Vanderpool D, Wilcox T, Schwartz M. Inbreeding in Alexander Archipelago wolves (Canis lupus ligoni) revealed by genome-wide runs of homozygosity. In revision.
91. Hunnicutt KE, Callahan CM, Keeble S, Moore EC, Good JM, Larson EL. Different complex regulatory phenotypes underlie hybrid male sterility in divergent rodent crosses. In revision, bioRxiv doi: 10.1101/2023.10.30.564782.
90. Rodriguez-Caro F, More EC, Good JM. Evolution of parent-of-origin effects on placental gene expression in house mice. In revision, bioRxiv doi: 10.1101/2023.08.24.554674.
89. Kopania EEK, Thomas GWC, Hutter CR, Mortimer SME, Callahan CM, Roycroft EJ, Achmadi AS, Breed WG, Clark NL, Esselstyn JA, Rowe KC, Good JM. Molecular evolution of male reproduction across species with highly divergent sperm morphology in diverse murine rodents. In review, bioRxiv doi: 10.1101/2023.08.30.555585.
88. Thomas GWC, Hughes JJ, Kumon T, Nordgren CE, Berv JS, Lampson M, Levine M, Searle JB, Good JM. The genomic landscape, causes, and consequences of extensive phylogenomic discordance in Old World mice and rats. In review, bioRxiv doi: 10.1101/2023.08.28.555178.
87. Storz JF, Quiroga-Carmona M, Liphardt S, Bautista NM, Opazo JC, Cernohorska AR, Salazar-Bravo J, Good JM, D’Elía G. (2024) Extreme high-elevation mammal surveys reveal unexpectedly high upper range limits of Andean mice. The American Naturalist, accepted. doi: abs/10.1086/729513. bioRxiv doi: 10.1101/2023.08.22.554215v1.
2023
86. Terbot JW, Cooper BS, Good JM, Jensen JD. (2023) A simulation framework for modeling the within-patient evolutionary dynamics of SARS-CoV-2. Genome Biology and Evolution, 15:evad204. doi: 10.1093/gbe/evad204 bioRxiv doi: 10.1101/2023.07.13.548462v1.
85. Nachman MW et al. [commentary with 119 co-authors, including AD Hornsby & JM Good]. (2023) Specimen collection is essential for modern science. PLoS Biology, 21:e3002318. https://doi.org/10.1371/journal.pbio.3002318
84. Storz JF, Liphardt S, Quiroga-Carmona M, Bautista NM, Opazo JC, Wheeler TB, D’Elía G, Good JM. (2023) Genomic insights into the mystery of mouse mummies on the summits of Atacama volcanoes. Current Biology, 33: R1040-R1042. doi: 10.1016/j.cub.2023.08.081. bioRxiv doi: 10.1101/2023.04.22.537927.
83. Wilsterman K, Moore EC, Schweizer RM, Cunningham K, Good JM, Cheviron ZA. (2023) Adaptive structural and functional evolution of the placenta protects fetal growth in high elevation deer mice. Proceedings of the National Academic of Sciences USA, 20;120(25):e2218049120. doi: 10.1073/pnas.2218049120, bioRxiv doi: 10.1101/2022.09.27.509814.
82. Ferreira MS, Thurman TJ, Jones MR, Farelo L, Kumar AV, Mortimer SM, Demboski JR, Mills LS, Alves PC, Melo-Ferreira J, Good JM. (2023) The evolution of white-tailed jackrabbit camouflage in response to past and future seasonal climates. Science, 379: 1238-1242. doi: 10.1126/science.ade3984.
81. Terbot JW, Johri P, Liphardt SW, Soni V, Pfeifer SP, Cooper BS, Good JM, Jensen JD. (2023) Developing an appropriate evolutionary baseline model for the study of SARS-CoV-2 patient samples. PLoS Pathogens, 19(4): e1011265. https://doi.org/10.1371/journal.ppat.1011265.
80. Kang, T, Moore EC, Kopania EEK, King CD, Schilling B, Campisi J, Good JM, Brem RB. (2023) A natural variation-based screen in mouse cells reveals USF2 as a regulator of the DNA damage response and cellular senescence. G3 Genes|Genomes|Genetics, 13(7):jkad091, doi: 10.1093/g3journal/jkad091, bioRxiv doi: 10.1101/2022.04.21.489100.
2022
79. Kopania EEK, Watson EM, Rathje CC, Skinner BM, Ellis PJI, Larson EL, Good JM. (2022) The contribution of sex chromosome conflict to disrupted spermatogenesis in hybrid house mice. Genetics, 222(4):iyac151 doi: 10.1093/genetics/iyac151. Preprint: bioRxiv doi: 10.1101/2022.07.19.499960.
78. Herrera ND, Bell KC, Callahan CM, Sarver BAJ, Sullivan J, Demboski JR, Good JM. (2022) Genomic resolution of cryptic species diversity in chipmunks. Evolution, 76:2004-2019. bioRxiv doi: 10.1101/2022.02.28.482304.
77. Moore EC, Thomas GWC, Mortimer SME, Kopania EEK, Hunnicutt KE, Larson EL, Good JM. (2022) The evolution of widespread recombination suppression on the dwarf hamster (Phodopus) X chromosome. Genome Biology and Evolution, 14:evac080. bioRxiv doi: 10.1101/2021.11.15.468705.
76. Kopania EEK, Larson EL, Callahan CM, Keeble SM, Good JM. (2022) Molecular evolution across mouse spermatogenesis. Molecular Biology and Evolution, 39:msac023. Preprint: bioRxiv doi: 10.1101/2021.08.04.455131.
75. Beckman EJ, Martins F, Suzuki TA, Bi K, Keeble S, Good JM, Chavez A, Ballinger MA, Agwamba K, Nachman MW. (2022) The genomic basis of high-elevation adaptation in wild house mice (Mus musculus domesticus) from South America. Genetics, iyab226, doi: 10.1093/genetics/iyab226.
74. Larson EL, Kopania EEK, Hunnicutt KE, Vanderpool D, Keeble SM, Good JM. (2022) Stage-specific disruption of X chromosome expression during spermatogenesis in sterile house mouse hybrids. G3 Genes|Genomes|Genetics, jkab407, https://doi.org/10.1093/g3journal/jkab407. bioRxiv doi: 10.1101/2021.11.12.468424.
73. Hunnicutt KE, Good JM, Larson EL. (2022) Unraveling patterns of disrupted gene expression across a complex tissue. Evolution, 76:275-291. doi: 10.1111/evo.14420. Preprint: bioRxiv doi: https://doi.org/10.1101/2021.07.08.451646.
2021
72. Roycroft EJ, Achmadi A, Callahan CM, Esselstyn JA, Good JM, Moussalli A, Rowe KC. (2021) Molecular evolution of ecological specialisation: genomic insights from the adaptive radiation of murine rodents. Genome Biology and Evolution, evab103, doi: 10.1093/gbe/evab103.
71. Brekke* TD, Moore* EC, Campbell-Staton SC, Callahan CM, Cheviron ZA, Good JM. (2021) X chromosome-dependent disruption of placental regulatory networks in hybrid dwarf hamsters. Genetics, 17:218:iyab043. doi: 10.1093/genetics/iyab043. Preprint: bioRxiv doi: 10.1101/2020.09.15.298893 *Equal contribution.
70. Sarver BAJ, Sneddon D, Herrera ND, Hunter SS, Settles ML, Kronenberg Z, Demboski JR, Good JM, Sullivan J. (2021) Diversification, introgression, and rampant cytonuclear discordance in central and southern rocky mountains chipmunks (Sciuridae: Tamias). Systematic Biology, syaa085, doi: 10.1093/sysbio/syaa085.
69. Ferreira MS, Jones MR, Callahan CM, Farelo L, Tolesa Z, Suchentrunk F, Mills LS, Alves PC, Good JM, Melo-Ferreira J. (2021) The legacy of recurrent introgression during the radiation of hares. Systematic Biology, 70:593-607. https://doi.org/10.1093/sysbio/syaa088. Preprint: bioRxiv doi: 10.1101/2020.06.19.160283.
2020
68. Jones MR, Mills LS, Jensen JD, Good JM. (2020) Convergent evolution of seasonal camouflage to reduced snow cover across the snowshoe hare range. Evolution, 74:2033-2045. doi.org/10.1111/evo.13976. Preprint: bioRxiv doi:10.1101/851766v2.
67. Jones MR, Mills LS, Jensen JD, Good JM. (2020) The origin and spread of locally adaptive seasonal camouflage in snowshoe hares. The American Naturalist, 196:316-332. doi:10.1086/710022. Preprint: bioRxiv doi:10.1101/847616.
66. Ferreira M, Alves P, Callahan C, Giska I, Farelo L, Hannes J, Mills LS, Hackländer K, Good JM, Melo-Ferreira J. (2020) Transcriptomic regulation of seasonal coat color change in hares. Ecology and Evolution, 10:1180-1192. doi:10.1002/ece3.5956
65. Marques JP, Seixas FA, Farelo L, Callahan CM, Good JM, Montgomery WI, Reid N, Alves PC, Boursot P, Melo-Ferreira J. (2020) An annotated draft genome of the mountain hare (Lepus timidus). Genome Biology and Evolution, 12:3656-3662. doi:10.1093/gbe/evz273
2019
64. Harris RB, Irwin K, Jones MR, Laurent S, Barrett RDH, Nachman MW, Good JM, Linnen CR, Jensen JD, Pfeifer SP. (2019) The population genetics of crypsis in vertebrates: recent insights from mice, hares, and lizards. Heredity, 124:1-14. doi:10.1038/s41437-019-0257-4.
63. Bi K, Linderoth T, Singhal S, Vanderpool D, Patton JL, Nielsen R, Moritz C, Good JM. (2019) Temporal genomic contrasts reveal rapid evolutionary responses in an alpine mammal during recent climate change. PLoS Genetics, 15(5): e1008119. https://doi.org/10.1371/journal.pgen.1008119.
62. Skinner BM, Bacon J, Rathje CC, Larson EL, Kopania EEK, Good JM, Affara NA, Ellis PJI. (2019) Automated nuclear cartography reveals conserved sperm chromosome territory localisation across 2 million years of mouse evolution. Genes, 10:109. doi: 10.3390/genes10020109.
61. Skinner BM, Rathje CC, Bacon J, Johnson EEP, Larson EL, Kopania EEK, Good JM, Yousafzai G, Affara NA, Ellis PJI. (2019) A high-throughput method for unbiased quantitation and categorisation of nuclear morphology. Biology of Reproduction, 100:1250-1260. bioRxiv doi.org/10.1101/312470.
2018
60. Phifer-Rixey M, Bi K, Ferris KG, Sheehan MJ, Lin D, Mack KL, Keeble SM, Suzuki TA, Good JM, Nachman MW. (2018) The genomic basis of environmental adaptation in house mice. PLoS Genetics, 14(9): e1007672; doi: 10.1371/journal.pgen.1007672.
59. Jones MR, Mills LS, Alves PC, Callahan CM, Alves JM, Lafferty DJR, Jiggins FM, Jensen JD, Melo-Ferreira J, Good JM. (2018) Adaptive introgression underlies polymorphic seasonal camouflage in snowshoe hares. Science, 360, 1355-1358.
58. Larson EL, Kopania E, Good JM. (2018) Spermatogenesis and the evolution of mammalian sex chromosomes. Trends in Genetics, doi: 10.1016/j.tig.2018.06.003.
57. Bracewell RR, Vanderpool D, Good JM, Six DL. (2018) Cascading speciation among mutualists and antagonists in a tree-beetle-fungi interaction. Proceedings of the Royal Society B, 285: 20180694; doi: 10.1098/rspb.2018.0694.
56. Larson EL, Vanderpool D, Sarver BAJ, Callahan C, Keeble S, Provencio LP, Kessler MD, Stewart V, Nordquist E, Dean MD, Good JM. (2018) The evolution of polymorphic hybrid incompatibilities in house mice. Genetics, 209: 845-859; doi: 10.1534/genetics.118.300840mice.
55. Mills LS, Bragina EV, Kumar AV, Zimova M, Lafferty DJR, Feltner J, Davis BM, Hacklander K, Alves P, Good JM, Melo-Ferreira J, Dietz A, Abramov AV, Lopatina N, Fay K. (2018) Winter color polymorphisms identify global hot spots for evolutionary rescue from climate change. Science, 359, 1033-1036.
54. Zimova M, Hacklaender K, Good JM, Melo-Ferreira J, Alves P, Mills LS. (2018) Function and underlying mechanisms of seasonal colour moulting in mammals and birds: What keeps them changing in a warming world? Biological Reviews, doi: 10.1111/brv.12405.
2017
53. Marques JP, Ferreira M, Farelo L, Callahan C, Hackländer K, Jenny H, Montgomery W, Reid N, Good JM, Alves P, Melo-Ferreira J. (2017) Mountain hare transcriptome and diagnostic markers as resources to monitor hybridization with European hares. Scientific Data, 4:170178. doi: 10.1038/sdata.2017.178.
52. Bracewell RR, Bentz BJ, Sullivan BT, Good JM. (2017) Rapid neo-sex chromosome evolution and incipient speciation in a major forest pest. Nature Communications, 1593, doi:10.1038/s41467-017-01761-4
51. Chang P, Kopania E, Keeble S, Sarver BAJ, Larson EL, Orth A, Belkhir K, Boursot P, Bonhomme F, Good JM, Dean MD. (2017) Whole exome sequencing of wild-derived inbred strains of mice improves power to link phenotype and genotype. Mammalian Genome, 28:416-425. [Featured cover image]
50. Ferreira MS, Alves PC, Callahan CM, Marques JP, Mills LS, Good* JM, Melo-Ferreira* J. (2017) The transcriptional landscape of seasonal coat color molt in the snowshoe hare. Molecular Ecology, 26: 4173-4185. *Equal contribution.
49. Sarver BAJ, Keeble S, Cosart T, Tucker PK, Dean MD, Good JM. (2017) Phylogenomic insights into mouse evolution using a pseudoreference approach. Genome Biology and Evolution, 9: 726-739, doi: 10.1093/gbe/evx034.
48. Marques JP, Farelo L, Vilela J, Alves PC, Good JM, Boursot P, Melo-Ferreira J. (2017) Range expansion underlies historical introgressive hybridization in the Iberian hare. Scientific Reports, 7:40788, doi: 10.1038/srep40788.
47. Larson EL, Keeble S, Vanderpool D, Dean MD, Good JM. (2017) The composite regulatory basis of the large X-effect in mouse speciation. Molecular Biology and Evolution, 34 (2): 282-295; doi: 10.1093/molbev/msw243.
46. Sarver BAJ, Demboski JR, Good JM, Forshee N, Hunter SS, Sullivan J. (2017) Comparative phylogenomic assessment of mitochondrial introgression among several species of chipmunks (Tamias). Genome Biology and Evolution, 9:7-19: doi: 10.1093/gbe/evw254.
2016
45. Brekke TD, Henry LA, Good JM (2016) Genomic imprinting, disrupted placental expression, and speciation. Evolution, 70:2690-2703.
44. Larson EL, Vanderpool D, Keeble S, Zhou M, Sarver BAJ, Smith AD, Dean MD, Good JM (2016) Contrasting levels of molecular evolution on the mouse X chromosome. Genetics, 10.1534/genetics.116.186825.
43. Abbott RJ, Barton NH, Good JM (2016) Genomics of hybridization and its evolutionary consequences. Molecular Ecology, 10.1111/mec.13685.
42. Andrews KR, Good JM, Miller MR, Luikart G, Hohenlowe PA (2016) Harnessing the power of RADseq for ecological and evolutionary genomics. Nature Reviews Genetics, 17:81-92.
41. Jones MR, Good JM (2016) Targeted capture in evolutionary and ecological genomics. Molecular Ecology, 85:185-202.
2015
40. Good JM, Vanderpool D, Keeble S, Bi K (2015) Negligible nuclear introgression despite complete mitochondrial capture between two species of chipmunks. Evolution, 69:1961-72. [Featured cover image]
39. Mangels R, Young B, Keeble S, Ardekani R, Meslin C, Ferreira Z, Clark NL, Good JM, Dean MD (2015) Genetic and phenotypic influences on copulatory plug survival in mice. Heredity, 115:496-502.
2014
38. Crino OL, Prather CT, Driscoll SC, Good JM, Bruener CW (2014) Developmental stress increases reproductive success in male zebra finches. Proceedings of the Royal Society B, 281: 20141266.
37. Carneiro M, Rubin CJ, Di Palma,F, Albert FW, Alföldi J, Barrio AM, Pielberg G, Rafati N, Sayyab S, Turner-Maier J, Younis S, Afonso S, Aken B, Alves JM, Barrell D, Bolet G, Boucher S, Burbano HA Campos R, Chang JL, Duranthon V, Fontanesi L, Garreau H, Heiman D, Johnson J, Mage RG, Peng Z, Queney G, Rogel-Gaillard C, Ruffier M, Searle S, Villafuerte R, Xiong A, Young S, Forsberg-Nilsson K, Good JM, Lander ES, Ferrand N, Lindblad-Toh K, Andersson L (2014) Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication. Science, 345: 1074-1079. [Science perspective]
36. Brekke TD, Good JM (2014) Parent-of-origin growth effects and the evolution of hybrid inviability in dwarf hamsters. Evolution, 68:3134-48.
35. Sullivan J, Demboski JR, Bell KC, Hird S, Sarver B, Reid N, Good JM (2014) Divergence-with-gene-flow within the recent chipmunk radiation (Tamias). Heredity, 113:185-94.
34. Carneiro M, Albert FW, Afonso S, Pereira RJ, Burbano H, Campos R, Melo-Ferreira J, Blanco-Aguiar JA, Villafuerte R, Nachman MW, Good JM, Ferrand N (2014) The genomic architecture of population divergence between subspecies of the European rabbit. PLoS Genetics, 10(8): e1003519.
2013
33. Bi K, Linderoth T, Vanderpool D, Good JM, Nielsen R, Moritz C (2013) Unlocking the vault: next-generation museum population genomics. Molecular Ecology, 24: 6018-6032.
32. Good JM, Wiebe V, Albert FW, Burbano HA, Kircher M, Green RE, Halbwax M, André C, Atencia R, Fischer A, Pääbo S (2013) Comparative population genomics of the ejaculate in humans and the great apes. Molecular Biology and Evolution, 30:964–976. [Faculty of 1000]
31. Campbell P, Good JM, Nachman MD (2013) Meiotic sex chromosome inactivation is disrupted in sterile hybrid male house mice. Genetics, 10.1534/genetics.112.148635. [Faculty of 1000]
2012
30. Good JM (2012) The conflict within and the escalating war between the sex chromosomes. PLoS Genetics, 8:e1002955. PDF
29. Bi K, Vanderpool D, Singhal S, Linderoth T, Moritz C, Good JM (2012) Transcriptome-based exon capture enables highly cost-effective comparative genomic data collection at moderate evolutionary scales. BMC Genomics, 13:403.
28. Campbell P, Good JM, Dean MD, Tucker PK, Nachman MD (2012) The contribution of the Y chromosome to hybrid male sterility in house mice. Genetics, 191: 1271-1281.
27. Prüfer K, Munch K, Hellmann I, Akagi K, Miller JR, Walenz B, Koren S, Sutton G, Kodira C, Winer R, Knight JR, Mullikin JC, Meader SJ, Ponting CP, Lunter G, Higashino S, Hobolth A, Dutheil J, Karakoç E, Alkan C, Sajjadian S, Catacchio CR, Ventura M, Marques-Bonet T, Eichler EE, André C, Atencia R, Mugisha L, Junhold J, Patterson N, Siebauer M, Good JM, Fischer A, Ptak SE, Lachmann M, Symer DE, Mailund T, Schierup MK, Andrés AM, Kelso J, Pääbo S (2012) The bonobo genome compared with the chimpanzee and human genomes. Nature, doi:10.1038/nature11128
2011
26. Crisci JL, Wong A, Good JM, Jensen JD (2011) On characterizing adaptive events unique to modern humans. Genome Biology and Evolution, 3:791-798.
25. Fischer A, Prüfer K, Good JM, Halbwax M, Wiebe V, André C, Atencia R, Mugisha L, Ptak SE, Pääbo S (2011) Bonobos fall within the genomic variation of chimpanzees. PLoS One 6:e21605
24. Good JM, Vanderpool D, Smith KL, Nachman MW (2011) Extraordinary sequence divergence at Tsga8, an X-linked gene involved in mouse spermiogenesis. Molecular Biology and Evolution, 28(5): 1675-1686.
23. Good JM (2011) Reduced representation methods for subgenomic enrichment and next-generation sequencing. In: Molecular Methods in Evolutionary Genetics (Orgogozo, V, and M. V. Rockman, eds.). Humana Press.
22. Albert FW, Hodges E, Jensen JD, Besnier F, Xuan Z, Rooks M, Bhattacharjee A, Brizuela L, Good JM, Green RE, Burbano HA, Plyusnina IZ, Trut L, Andersson L, Schöneberg T, Carlborg Ö, Hannon GJ, Pääbo S, (2011) Targeted resequencing of a genomic region influencing tameness and aggression reveals multiple signals of positive selection. Heredity, 107: 205-214.
2010
21. Reich D, Green RE, Kircher M, Krause J, Patterson N, Durand EY, Viola B, Briggs AW, Stenzel U, Johnson PLF, Maricic M, Good JM, Marques-Bonet T, Alkan C, Fu Q, Mallick S, Li H, Meyer M, Eichler EE, Stoneking M, Richards M, Talamo S, Shunkov MV, Derevianko AP, Hublin JJ, Kelso J, Slatkin M, Pääbo S (2010) Genetic history of an archaic hominin group from Denisova Cave in Siberia. Nature, 468: 1053-1060. [Nature News & Views] [Nature_News] [New York Times]
20. Good JM, Giger T, Dean MD, Nachman MW (2010) Widespread over-expression of the X chromosome in sterile F1 mice. PLoS Genetics, 6(9): e1001148.
19. Green RE, Krause J, Briggs AW, Maricic M, Stenzel U, Kircher M, Patterson N, Li L, Zhai W, Fritz MH-Y, Hansen N, Durand EY, Malaspinas A-S, Jensen JJ, Marques-Bonet T, Alkan C, Prüfer K, Meyer M, Burbano HA, Good JM, Schultz R, Aximu-Petri A, Butthof A, Höber B, Höffner B, Siegemund M, Weihmann A, Nusbaum C, Lander ES, Russ C, Novod N, Affourtit J, Egholm M, Verna C, Rudan P, Brajkovic D, Kucan Z, Guic I, Doronichev VB, Golovanova LV, Lalueza-Fox C, Rasilla M, Fortea J, Rosas A, Schimtz RW, Johnson PLF, Eichler EE, Falush D, Birney E, Mullikan JC, Slatkin M, Nielsen R, Kelso J, Lachmann M, Reich D, Pääbo S (2010) A draft sequence of the Neandertal genome. Science, 328; 710-722. [Science News] [Faculty of 1000]
18. Burbano HA, Hodges E, Green RE, Briggs AW, Krause J, Meyer M, Good JM, Maricic M, Johnson PLF, Xuan Z, Rooks M, Bhattacharjee A, Brizuela L, Albert FW, de la Rasilla M, Fortea J, Rosas A, Lachmann M, Hannon GJ, Pääbo S (2010) Targeted investigation of the Neandertal genome by array-based sequence capture. Science, 328; 723-725. [Science News]
17. Krause J, Fu Q, Good JM, Viola B, Shunkov MV, Derevianko AP, Pääbo S (2010) The complete mitochondrial DNA genome of an unknown hominin from southern Siberia. Nature 464, 894-897. [Nature News & Views] [New York Times]
2009 -2001
16. Briggs AW, Good JM, Green RE, Krause J, Maricic T, Stenzel U, Pääbo S (2009) Primer Extension Capture: targeted sequence retrieval from heavily degraded DNA sources. Journal of Visualized Experiments, 31. http://www.jove.com/index/details.stp?id=1573, doi: 10.3791/1573
15. Briggs AW, Good JM, Green RE, Krause J, Maricic T, Stenzel U, Lalueza-Fox C, Rudan P, Brajkovic D, Kucan Z, Gusic I, Schmitz R, Doronichev VB, Golovanova LV, Rasilla M, Fortea J, Rosas A, Pääbo S (2009) Targeted retrieval and analysis of five Neandertal mtDNA genomes. Science, 325: 318-321. [ScienceNews] [Nature Methods]
14. Good JM, Dean MD, Nachman MW (2008) A complex genetic basis to X-linked hybrid male sterility between two species of house mice. Genetics, 179: 2213-2228. [Issue Highlights]
13. Green RE, Malaspinas A-S, Krause J, Briggs AW, Johnson PLF, Uhler C, Meyer M, Good JM, Maricic T, Stenzel U, Prufer K, Siebauer M, Burbano HA, Ronan M, Rothberg JM, Egholm M, Rudan P, Brajkovic D, Kucan Z, Gusic I, Wikstrom M, Laakkonen L, Kelso J, Slatkin M, Pääbo S (2008) A complete Neandertal mitochondrial genome sequence determined by high-throughput sequencing. Cell, 134:416-426 [featured cover article].
12. Good JM, Handel MA, Nachman MW (2008) Asymmetry and polymorphism of hybrid male sterility during the early stages of speciation in house mice. Evolution, 62: 50-65.
11. Good JM, Hird S, Reid N, Demboski JR, Steppan SJ, Martin-Nims TR, Sullivan J (2008) Ancient hybridization and mitochondrial capture between two species of chipmunks. Molecular Ecology, 17:1313-1327.
10. Dean MD, Good JM, Nachman MW (2008) Adaptive evolution of proteins secreted during sperm maturation: an analysis of the mouse epididymal transcriptome. Molecular Biology and Evolution, 25: 383-392.
9. Good JM, Hayden CA, Wheeler TJ (2006) Adaptive protein evolution and regulatory divergence in Drosophila. Molecular Biology and Evolution, 23:1101-1103.
8. Saunders MA, Good JM, Lawrence EC, Ferrel RE, Li W-H, Nachman MW (2006) Human adaptive evolution at Myostatin, a regulator of muscle growth. American Journal of Human Genetics, 79:1089-1097.
7. Good JM, Ross CL, Markow TA (2006) Multiple paternity in wild-caught Drosophila mojavensis. Molecular Ecology, 15:2253-2260.
6. Carstens BC, Brunsfeld SJ, Demboski JR, Good JM, Sullivan J (2005) Investigating the evolutionary history of the Pacific Northwest mesic forest ecosystem: hypothesis testing within a comparative phylogeography framework. Evolution, 59:1639-1652.
5. Good JM, Nachman MW (2005) Rates of protein evolution are positively correlated with timing of expression during mouse spermatogenesis. Molecular Biology and Evolution 22:1044-1052. [Faculty of 1000]
4. Cutter AD, Good JM, Pappas CT, Saunders MA, Starrett DM, Wheeler T (2005) Transposable element orientation bias in the Drosophila melanogaster genome. Journal of Molecular Evolution, 61:1-19.
3. Good JM, Demboski JR, Nagorsen D, Sullivan J (2003) Phylogeography and introgressive hybridization: chipmunks (genus Tamias) in the northern Rocky Mountains. Evolution, 57:1900-1916.
2. Cutter AD, Payseur BA, Salcedo T, Estes AM, Good JM, Wood E, Hartl T, Maughan H, Strempel J, Wang B, Bryan AC, Dellos M (2003) Molecular correlates of genes exhibiting RNAi phenotypes in Caenorhabditis elegans. Genome Research, 13:2651-2657.
1. Good JM, Sullivan J (2001) Phylogeography of the red-tailed chipmunk (Tamias ruficaudus), a northern Rocky Mountain endemic. Molecular Ecology, 10:2683-2696.