Publications

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*indicates authors contributing equally to this work, underline indicates undergraduate/pre-doc author.

53. Sobel E, Coate J, Ho EKH, and S Schaack. 2022. Estimating somatic mutation rates by bottle-necked duplex sequencing in non-model organisms: Daphnia magna as a case study. Accepted at Journal of Biological Methods.

52. Scheffer H, Coate J, Ho EKH, and S Schaack. 2022. Thermal stress and mutation accumulation increase heat shock protein expression in Daphnia. Available online at Evolutionary Ecology (doi: 10.1007/s10682-022-10209-1).

51. Ho EKH and S Schaack. 2021. Intraspecific variation in the rates of mutations causing structural variation in Daphnia magna. Genome Biology & Evolution, 13(12). Evab241. (https://doi.org/10.1093/gbe/evab241)

50. Ho EKH, Bellis ES, Calkins J, Adrion, JR, Latta LC, and S Schaack. 2021. Engines of change: Transposable element mutation rates are high and variable within Daphnia magna. PLoS Genetics. 17(11): e1009827. (doi.org/10.1371/journal.pgen.1009827)

49. Busseola fusca Genomics Consortium, which includes Hardwick KM, Bichang’a G, Abtew AB, Awori RM, Cepko LCS, Chebon-Bore LJ, Darby AB, deVries JD, Filée J, Fuad M, Gachara G, Githae DK, Gunga P, Held M, Kariuki HW, Kataka ES, Kerfua SD, Kimenyi KM, Le Ru BP, Lutomia EM, Luvai EA, Luvanda MK, Lyimo BM, Machuka EM, Maeda DG, Maina S, Mathenge PG, Matoke-Muhia D, Miller CH, Miruka SA, Mitema A, Miyunga AA, Mukolwe SA, Muge EK, Mule SN, Murithi MK, Musabyimana J-P, Muzoora S, Mwangi EW, Mwangi HN, Mwangi N, Mwaura AN, Ndungu N, Ngalah BS, Ng'ang'a PN, Njoroge HN, Nyandika BN, Nyasani JO, Obange FA, Ochieng SJ, Odhiambo WO, Ogot HA, Ojwang' MAE, Osowo FO, Ratemo BO, Sonda T, Ssamula A, Towett-Kirui S, Twizerimana AP, Wachiuri KM, Wacoo AP, Wamae K, Webale MK, Yaa RM, Gundersen-Rindal DE, Stomeo F, Djikeng A, Calatayud P-A, and S Schaack. 2020. Comprehensive transcriptome of Busseola fusca, the maize stalk borer, a major crop pest in sub-Saharan Africa. Genome Biology & Evolution 12(12):2554-2560. (doi:10.1093/gbe/evaa195)

48. Zhao X, Su L, Xu W, Schaack S, and C Sun. 2020. Genome-wide identification of accessible chromatin regions in bumblebee (Bombus terrestris) by ATAC-seq. Scientific Data 7(367) (doi.org/10.1038/s41597-020-00713-w)

47. Zhao X, et al. including S Schaack. 2020. Genus-wide characterization of bumblebee genomes provides insights into their evolution and variation in ecological and behavioral traits. Molecular Biology & Evolution 38(2):486-501. (doi: 10.1093/molbev/msaa240), featured as a Research Highlight by Nature Reviews Genetics (https://www.nature.com/articles/s41576-020-00294-9)

46. Ho EKH, Macrae F, Latta LC, McIlroy P, Ebert D, Fields P, Benner MJ, and S Schaack. 2020. High and highly variable spontaneous mutation rates in Daphnia. Molecular Biology & Evolution 37(11):3258-3266. (doi: 10.1093/molbev/msaa142)

45. Frankel-Bricker J, Song MJ, Benner MJ, and S Schaack. 2020. Variation in the microbiota associated with Daphnia magna across genotypes, populations, and temperature. Microbial Ecology 79(3): 731-742. (doi: 10.1007/s00248-019-01412-9)

44. Schaack S, Ho EKH, and F Macrae. 2019. Disentangling the intertwined roles of mutation, selection, and drift in the mitochondrial genome. Philosophical Transactions of the Royal Society B 375(1790): 20190173. (doi: 10.1098/rstb.2019.0173)

43. Hardwick KM, AME Ojwang', F Stomeo, S Maina, G Bichang’a, P-A Calatayud, J Filée, A Djikeng, C Miller, L Cepko, AC Darby, B Le Ru, and S Schaack. 2019. Draft genome of Busseola fusca, the maize stalk borer, a major crop pest in sub-Saharan Africa. Genome Biology & Evolution 11(8):2203–2207. (doi: 10.1093/gbe/evz166)

42. Ho EKH, Macrae F, Latta LC, Benner MJ, Sun C, Ebert D, and S Schaack. 2019. Intraspecific variation in microsatellite mutation profiles of Daphnia magna. Molecular Biology and Evolution 36(9):1942–1954. (doi: 10.1093/molbev/msz118)

41. Eberle S, Dezoumbe D, Kinzer S, Raver W, Humphrey R, Schaack S, and LC Latta IV. 2018. Hierarchical assessment of mutational properties in Daphnia magna. G3:Genes, Genomes, Genetics 8(11):3481-3487. (doi: 10.1534/g3.118.200472)

40. Zhao X, Su L, Schaack S, Sadd B, and C Sun. 2018. Tandem repeats contribute to coding sequence variation in bumblebees (Hymenoptera: Apidae). Genome Biology & Evolution 10(12):3176-3187. (doi: 10.1093/gbe/evy244)

39. Song M, and S Schaack, S. 2018. Evolutionary conflict between mobile DNA and their host genome. The American Naturalist 192(2): 263-273. (doi: 10.1086/698482)

38. Meik JM, Schaack S, Flores-Villela O, Streicher JW. 2018. Integrative taxonomy at the nexus of population divergence and speciation in insular Speckled Rattlesnakes. Journal of Natural History 52(13-16): 989-1016. (doi: 10.1080/00222933.2018.1429689)

37. Adrion J, Song M, Schrider D, Hahn MW, and S Schaack. 2017. Genome-wide estimates of transposable element insertion and deletion in Drosophila melanogaster. Genome Biology & Evolution 9(5):1329–1340. (doi: 10.1093/gbe/evx050)

36. Kaner J and S Schaack. 2016. Understanding Ebola: The 2014 epidemic. Globalization and Health 12:53. (doi:10.1186/s12992-016-0194-4)

35. Kanost, MR and the Manduca sexta Genome Consortium, including Kroll A and S Schaack. 2016. Multifaceted
 biological insights from a draft genome sequence of the Tobacco Hornworm Moth, Manduca sexta. Insect Biochemistry and Molecular Biology 76:118-147. (dx.doi.org/10.1016/ j.ibmb.2016.07.005)

34. Maritim T, Kamunya S, Mwendia C, Mireji P, Muoki R, Wamalwa M, Stomeo F, Schaack S, Kyalo M, and F Wachira. 2016. Transcriptome-based identification of water-deficit stress responsive genes in the tea plant, Camellia sinensis. J Plant Biotechnol 43:302-310 (doi: 10.5010/JPB.2016.43.3.302)

33. Keith N, Tucker AE, Lledó JIL, Jackson CE, Sung W, Schrider DR, Schaack S, Dudycha JL, Shaw JL, and M Lynch. 2016. High mutational rates of large-scale duplication and deletion in Daphnia pulex. Genome Research 26:60-69 (doi: 10.1101/gr.191338.115).

32. Metegnier G, Becking T, Chebbi A, Giraud I, Moumen B, Schaack S, Cordaux R, and C Gilbert. 2015. Comparative paleovirological analysis of crustaceans identifies five widespread viral groups. Mobile DNA 6:16. (doi: 10.1186/s13100-015-0047-3)

31. Linck E, Schaack S, and J Dumbacher. 2015. Genetic differentiation within a widespread “supertramp” taxon: molecular phylogenetics of the Louisiade White-eye (Zosterops griseotinctus). Molecular Phylogenetics & Evolution 94(A):113-121. (doi: 10.1016/j.ympev.2015.08.018)

30. Ray DA, Pagan HJT, Platt RN III, Kroll A, Schaack S, and RD Stevens. 2015. Differential SINE evolution in vesper and non-vesper bats. Mobile DNA 6:10 (doi: 10.1186/s13100-015-0038-4).

29. Latta LC IV, Peacock M, Meik J, Civitello D, Dudycha J, and S Schaack. 2015. The phenotypic effects of spontaneous mutation across environments. The American Naturalist 185(2):243-252. (doi: 10.1086/679501)

28. Gilbert, C, Meik, JM, Dashevsky DS, Card, D, Castoe, TA, and S Schaack. 2014. Endogenous hepadnaviruses, bornaviruses and circoviruses in snakes. Proceedings of the Royal Society B Biological Sciences 281(1791): 20141122.

27. Dashevsky DS, Meik JM, Setser K, Mociño-Deloya E, and S Schaack. 2013. Patterns of sexual dimorphism in Alligator lizards, Barisia imbricata. Ecology & Evolution 3(2):255-261.

26. Gilbert, C, Waters P, Feschotte C, and S Schaack. 2013. Horizontal transfer of a transposable element into Tasmanian devils. BMC Genomics 14:134.

25. Schaack S, Allen D, Latta LC IV, Morgan K, and M Lynch. 2013. The effect of spontaneous mutations on competitive ability. Journal of Evolutionary Biology 26:451-456.

24. Latta LC IV, Allen D, Morgan K, Weaver CS, Schaack S, and M Lynch. 2013. Genomic background and generation time influence deleterious mutation rates in Daphnia. Genetics 193: 539-544.

23. Pearson T, Hornstra HM, Schaack S, Schupp JM, Beckstrom-Sternberg SM, O’Neill MW, Priestly RA, Champion MD, Beckstrom-Sternberg JS, Kersh GJ, Samuel JE, Massung RF, and P Keim. 2013. When outgroups fail; phylogenomic analysis of the emerging pathogen, Coxiella burnetii. Systematic Biology 62(5): 752–762.

22. Meik JM, Schaack S, Ingrasci MJ, Lawing AM, Setser K, Mociño-Deloya E, and O Flores-Villela. 2012. Notes on Activity, Body Size Variation, and Diet in Insular Speckled Rattlesnakes from the Western Sea of Cortés, Mexico. Herpetological Review 43(4):556-560.

21. Curtis et al., including Schaack, S. 2012. Algal nuclear genomes reveal evolutionary mosaicism and fate of nucleomorphs. Nature 492:59-65.

20. Xu S, Schaack S, Seyfert A, Choi E, Lynch M, and M Cristescu. 2012. High mutation rates in the mitochondrial genomes of Daphnia pulex. Molecular Biology & Evolution 29(2):763-769.

19. Daphnia Genomics Consortium, including Schaack, S. 2011. The ecoresponsive genome of Daphnia pulex. Science 331(6017):555-561.

18. Schaack S*, Gilbert C*, and C Feschotte. 2010. Promiscuous DNA: horizontal transfer of transposable elements and why it matters for eukaryotic evolution. Trends in Ecology and Evolution 25:537-546.

17. Gilbert C*, Schaack S*, Brindley P, Pace JK, and C Feschotte. 2010. A role for host-parasite interactions in the horizontal transfer of DNA transposons across animal phyla. Nature 464:1347-1350. (Reviewed by Faculty of 1000)

16. Thomas J, Schaack S, and EJ Pritham. 2010. Pervasive horizontal transfer of rolling-circle transposons among animals. Genome Biology and Evolution 2:656-664.

15. Schaack S, Choi E, Lynch M, and EJ Pritham. 2010. DNA transposons and the role of recombination in mutation accumulation in Daphnia pulex. Genome Biology 11:R46.

14. Schaack S, Pritham EJ, Wolfe A, and M Lynch. 2010. DNA transposon dynamics in populations of Daphnia pulex with and without sex. Proceedings of the Royal Society B 277:2381-2387.

13. Rho M, Schaack S, Gao X, Kim S, Lynch M, and H Tang. 2010. LTR retroelements in the genome of Daphnia pulex. BMC Genomics 11:425.

12. Schaack S. 2008. Perspective: Daphnia comes of age: an ecological model in the genomic era. Molecular Ecology 17(7):1634-1635.

11. Gollapudi R, Revanna KV, Hemmerich C, Schaack S, and Q Dong. 2008. BOV—a web-based BLAST output visualization tool. BMC Genomics 9:414-420.

10. Seyfert A, Cristesçu M, Schaack S, Frisse L, Thomas WK, and M Lynch. 2008. The rate and spectrum of microsatellite mutation in Caenorhabditis elegans and Daphnia pulex. Genetics 178(4):2113-2121.

9. Lynch M, Koskella B* and S Schaack*. 2006. Mutation pressure and the evolution of organelle genomic architecture. Science 311:1727-1730. (Reviewed by Faculty of 1000)

8. Schaack S and LJ Chapman. 2004. Foraging ecology of the African cyprinid, Barbus neumayeri: the role of hypoxia in intraspecific variation. Environmental Biology of Fishes 70(2):95-105.

7. Schaack S and LJ Chapman. 2003. Interdemic variation in the African cyprinid, Barbus neumayeri: correlations among hypoxia, morphology, and feeding performance. Canadian Journal of Zoology 81(3):430-440.

6. Coyner DF, Schaack S, Spalding MG, and DJ Forrester. 2001. Altered behavior and predation susceptibility of fishes infected with Eustrongylides ignotus. Journal of Wildlife Disease 37(3): 556-560. (Wildlife Disease Association, Best Student Paper Winner, 1997)

5. Hemenway MP, Avery ML, Ginn PE, Schaack S, Dame JB, and EC Greiner. 2001. Influence of size of sporocyst inoculum upon the size and number of sarcocysts of Sarcocystis falcatula which develop in the Brown-headed Cowbird. Veterinary Parasitology 95(2-4):321-326.

4. Rettig JE, Smith G, Mittelbach GG, Valiulis JM, and S Schaack. 1999. Direct and indirect effects of fish density on amphibian abundances in a field experiment allowing for natural colonization. Journal of Freshwater Biology 54(3): 147-155.

Book reviews and short notes

3. Schaack, S. 2013. Exploring Cognitive and Cultural Constraints on the Understanding and Acceptance of Evolution: A review of Evolution Challenges. Eds: Karl S. Rosengren, Sarah K. Brem, E. Margaret Evans, and Gale M. Sinatra. 2012. Oxford University Press, Oxford and New York, 464 pp. ISBN 978-0-19-973042-1. Evolution & Development 15:1, 85–86.

2. Gilbert C, Schaack S, and C Feschotte. 2010. Mobile elements jump between parasites and vertebrate hosts. Médecine Sciences (Paris) 26(12):1025-1027.

1. Streicher JW, Meik JM, and S Schaack. 2009. Geographic distribution: Anaxyrus debilis debilis. Herpetological Review. 40(3):361.

Winner of first prize in the arts and crafts poster revolution contest (according to Dan Graur) at the 2013 SMBE meeting in Chicago.

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