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Teosinte_inversion
Frequency of the inversion Inv1n in teosinte populations in Mexico from Fang et al. 2012. - Figure by Kevin Volz

Barley gene

Selected Publications
Members of the Morrell Lab are noted by
underlining.

Pre-prints and articles in review
Liu Q, Zhou Y, Morrell PL, Gaut BS (2016) Deleterious variants in Asian rice and the potential cost of domestication. bioRxiv

Kono TJY, Fu F, Mohammadi M, Hoffman PJ, Liu C, Stupar RM, Smith KP, Tiffin P, Fay JC, Morrell PL (2015) The role of deleterious substitutions in crop genomes. bioRxiv

Durvasula A, Kent TV, Hoffman PJ, Liu C, Kono TJY, Morrell PL, Ross-Ibarra J (2015) ANGSD-wrapper: utilities for analyzing next generation sequencing data. PeerJ PrePrints 3: e1837.

2016
Nice LM, Steffenson BJ, Brown-Guedira GL, Akhunov ED, Liu C, Kono TJY, Morrell PL, Horsley RD, Smith KP, Muehlbauer GJ (2016) Development and genetic characterization of an Advanced Backcross – Nested Association Mapping (AB-NAM) population of wild x cultivated barley. Genetics

Anderson JE, Kono TJ, Stupar RM, Kantar MB, Morrell PL (2016) Environmental association analyses identify candidates for abiotic stress tolerance in Glycine soja, the wild progenitor of cultivated soybeans. G3 6: 835-843.

Poets AM, Mohammadi M, Seth K, Wang H, Kono TJY, Fang Z, Muehlbauer GJ, Smith KP, Morrell PL (2016) The effects of both recent and long-term selection and genetic drift are readily evident in North American barley breeding populations. G3 6: 609-622.

2015
Gaut BS, Diez CM, Morrell PL (2015) Genomics and the contrasting dynamics of annual and perennial domestication. Trends in Genetics 31:709-719.

He SL, Yang Y, Morrell PL, Yi TS 2015. Nucleotide sequence diversity and linkage disequilibrium of four nuclear loci in foxtail millet (Setaria italica). PLoS One 10: e0137088.

Poets AM, Fang Z, Clegg MT, Morrell PL 2015. Barley landraces are characterized by geographically heterogeneous genomic origins. Genome Biol 16: 173.
Research highlight by Robin Allaby: Barley domestication: the end of a central dogma?

2014
Fang Z, Gonzales AM, Clegg MT, Muehlbauer GJ, Smith KP, Steffenson BJ, Morrell PL (2014) Two genomic regions contribute disproportionately to geographic differentiation in wild barley. G3 4: 1193-1203.

Morrell PL, Gonzales AM, Meyer KK, Clegg MT (2014) Resequencing data indicate a modest effect of domestication on diversity in barley: a cultigen with multiple origins. J Hered 105: 253-264.

McCoy AM, Schaefer R, Petersen JL, Morrell PL, Slamka MA, Mickelson JR, Valberg SJ, McCue ME (2014) Evidence of positive selection for a glycogen synthase (GYS1) mutation in domestic horse populations. J Hered 105: 163-172.

Kono TJ, Seth K, Poland JA, Morrell PL (2014) SNPMeta: SNP annotation and SNP metadata collection without a reference genome. Mol Ecol Resour 14: 419-425.
Program Documentation:
SNPMeta
Latest Version on Github: SNPMeta

Kantar MB, Betts K, Michno J-MS, Luby JJ, Morrell PL, Hulke BS, Stupar RM, Wyse DL (2014) Evaluating an interspecific Helianthus annuus x Helianthus tuberosus population for use in a perennial sunflower breeding program. Field Crops Research 155: 254-264.

2013
Fang Z, Eule-Nashoba A, Powers C, Kono TY, Morrell PL, Smith KP (2013) Comparative analyses identify the contributions of exotic donors to disease resistance in a barley experimental population. G3 3: 1945-1953.

Yi T, Morrell PL, Pei S-J, He S-A (2013) Chapter 20 - Major introduced economic plants. Plants of China - A companion to the Flora of China. Beijing, China.

Fang Z, Gonzales AM, Durbin ML, Meyer KKT, Miller BH, Volz KM, Clegg MT, Morrell PL (2013) Tracing the geographic origin of weedy Ipomoea purpurea (common morning glory) in the Southeastern United States. J Hered 104: 666-677.

Mascher M, Richmond TA, Gerhardt DJ, Himmelbach A, Clissold L, Sampath D, Ayling S, Steuernagel B, Pfeifer M, D’Ascenzo M, Akhunov ED, Hedley P, Gonzales AM, Morrell PL, Kilian B, Blattner FR, Scholz U, Mayer KFX, Flavell AJ, Muehlbauer GJ, Waugh R, Jeddeloh JA, Stein N (2013) Barley whole exome capture: a new tool for genomic research in the genus Hordeum and beyond. The Plant Journal 76: 494-505.

Cavanagh CR, Chao S, Wang S, Huang BE, Stephen S, Kiani S, Forrest K, Saintenac C, Brown-Guedira GL, Akhunova A, See D, Bai G, Pumphrey M, Tomar L, Wong D, Kong S, Reynolds M, da Silva ML, Bockelman H, Talbert L, Anderson JA, Dreisigacker S, Baenziger S, Carter A, Korzun V, Morrell PL, Dubcovsky J, Morell MK, Sorrells ME, Hayden MJ, Akhunov E (2013) Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars. Proc Natl Acad Sci USA 110: 8057-8062.

2012
Gonzales AM, Fang Z, Durbin ML, Meyer KK, Clegg MT, Morrell PL (2012) Nucleotide sequence diversity of floral pigment genes in Mexican populations of Ipomoea purpurea (morning glory) accord with a neutral model of evolution. J Hered 103: 836-872.
Poster: American Genetic Association Symposium

Hufford MB, Xu X, van Heerwaarden J, Pyhajarvi T, Chia JM, Cartwright RA, Elshire RJ, Glaubitz JC, Guill KE, Kaeppler SM, Lai J, Morrell PL, Shannon LM, Song C, Springer NM, Swanson-Wagner RA, Tiffin P, Wang J, Zhang G, Doebley J, McMullen MD, Ware D, Buckler ES, Yang S, Ross-Ibarra J (2012) Comparative population genomics of maize domestication and improvement. Nat Genet 44: 808-811.
Download: pdf - Nature Genetics News and Views

Fang Z, Pyhäjärvi T, Weber AL, Dawe RK, Glaubitz JC, Sanchez Gonzalez JD, Ross-Ibarra C, Doebley J, Morrell PL, Ross-Ibarra J (2012) Megabase-scale inversion polymorphism in the wild ancestor of maize. Genetics 191: 883-894.

Yi, T and Morrell, PL (in press). Introduction of major exotic economic plants. In: Hong, D and Blackmore, S (eds.). Plants of China.

Morrell PL, Buckler ES, Ross-Ibarra J (2012)
Crop genomics: advances and applications. Nat Rev Genet 13: 85-96.
Download: pdf

2011
Morrell, PL and Clegg, MT 2011. Hordeum in Wild Crop Relatives–Genomic and Breeding Resources: Legume Crops and Forages, edited by C. Kole, Springer-Verlag, Berlin.

2010
Akhunov ED, Akhunova AR, Anderson OD, Anderson JA, Blake N, Clegg MT, Coleman-Derr D, Conley EJ, Crossman CC, Deal KR, Dubcovsky J, Gill BS, Gu YQ, Hadam J, Heo H, Huo N, Lazo GR, Luo MC, Ma YQ, Matthews DE, McGuire PE, Morrell PL, Qualset CO, Renfro J, Tabanao D, Talbert LE, Tian C, Toleno DM, Warburton ML, You FM, Zhang W, Dvorak J (2010) Nucleotide diversity maps reveal variation in diversity among wheat genomes and chromosomes. BMC Genomics 11: 702.

Chen HF, Morrell PL, Toleno DM, Lundy KE, Clegg MT (2010) Allele-specific PCR can improve the efficiency of experimental resolution of heterozygotes in resequencing studies. Mol Ecol Resour 10: 647-658.

2009
Aguilar-Melendez A, Morrell PL, Roose ML, Kim SC (2009) Genetic diversity and structure in semiwild and domesticated chiles (Capsicum annuum; Solanaceae) from Mexico. Am J Bot 96: 1190-1202.

Chen HF, Morrell PL, Ashworth VE, de la Cruz M, Clegg MT (2009)
Tracing the geographic origins of major avocado cultivars. J Hered 100: 56-65.

Luo MC, Deal KR, Akhunov ED, Akhunova AR, Anderson OD, Anderson JA, Blake N, Clegg MT, Coleman-Derr D, Conley EJ, Crossman CC, Dubcovsky J, Gill BS, Gu YQ, Hadam J, Heo HY, Huo N, Lazo G, Ma Y, Matthews DE, McGuire PE, Morrell PL, Qualset CO, Renfro J, Tabanao D, Talbert LE, Tian C, Toleno DM, Warburton ML, You FM, Zhang W, Dvorak J (2009) Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae. Proc Natl Acad Sci USA 106: 15780-15785.

2008
Chen H, Morrell PL, de la Cruz M, Clegg MT (2008) Nucleotide diversity and linkage disequilibrium in wild avocado (Persea americana Mill.). J Hered 99: 382-389.

2007
Ross-Ibarra J, Morrell PL, Gaut BS (2007) Colloquium Papers: Plant domestication, a unique opportunity to identify the genetic basis of adaptation. Proc Natl Acad Sci USA 104 Suppl 1: 8641-8648.

Morrell PL, Clegg MT (2007)
Genetic evidence for a second domestication of barley (Hordeum vulgare) east of the Fertile Crescent. Proc Natl Acad Sci USA 104: 3289-3294.

Toleno DM, Morrell PL, Clegg MT (2007)
Error detection in SNP data by considering the likelihood of recombinational history implied by three-site combinations. Bioinformatics 23: 1807-1814.
Download EDUT


Older Publications
Morrell PL, Toleno DM, Lundy KE, Clegg MT (2006) Estimating the contribution of mutation, recombination and gene conversion in the generation of haplotypic diversity. Genetics 173: 1705-1723.

Morrell PL, Williams-Coplin TD, Lattu AL, Bowers JE, Chandler JM et al. (2005)
Crop-to-weed introgression has impacted allelic composition of johnsongrass populations with and without recent exposure to cultivated sorghum. Mol Ecol 14: 2143-2154.

Morrell PL, Toleno DM, Lundy KE, Clegg MT (2005)
Low levels of linkage disequilibrium in wild barley (Hordeum vulgare ssp. spontaneum) despite high rates of self-fertilization. Proc Natl Acad Sci USA 102: 2442-2447.

Clegg, M. T. and P. L. Morrell. 2004. Bioinformatics in Encyclopedia of Plant and Crop Science, edited by R.M. Goodman, Marcel Dekker, New York.

Clegg, M. T. and P. L. Morrell. 2004. Mutational processes in
Encyclopedia of Plant and Crop Science, edited by R.M. Goodman, Marcel Dekker, New York.

Durbin ML, Lundy KE, Morrell PL, Torres-Martinez CL, Clegg MT (2003)
Genes that determine flower color: the role of regulatory changes in the evolution of phenotypic adaptations. Mol Phylogenet Evol S 29: 507-518.

Morrell PL, Lundy KE, Clegg MT (2003)
Distinct geographic patterns of genetic diversity are maintained in wild barley (Hordeum vulgare ssp. spontaneum) despite migration. Proc Natl Acad Sci USA 100: 10812-10817.

Lin JZ, Morrell PL, Clegg MT (2002)
The influence of linkage and inbreeding on patterns of nucleotide sequence diversity at duplicate alcohol dehydrogenase loci in wild barley (Hordeum vulgare ssp. spontaneum). Genetics 162: 2007-2015.

Takebayashi N, Morrell PL (2001)
Is self-fertilization an evolutionary dead end? Revisiting an old hypothesis with genetic theories and a macroevolutionary approach. Am J Bot 88: 1143-1150.

Draye X, Lin YR, Qian XY, Bowers JE, Burow GB et al. (2001)
Toward integration of comparative genetic, physical, diversity, and cytomolecular maps for grasses and grains, using the sorghum genome as a foundation. Plant Physiol 125: 1325-1341.

Jiang CX, Chee PW, Draye X, Morrell PL, Smith CW et al. (2000)
Multilocus interactions restrict gene introgression in interspecific populations of polyploid Gossypium (cotton). Evolution Int J Org Evolution 54: 798-814.

Morrell PL, Porter JM, Friar EA (2000)
Intercontinental dispersal: the origin of the widespread South American plant species Gilia laciniata (Polemoniaceae) from a rare California and Oregon coastal endemic. Plant Syst Evol 224: 13-32.

Morrell PL, Rieseberg LH (1998)
Molecular tests of the proposed diploid hybrid origin of Gilia achilleifolia (Polemoniaceae). Am J Bot 85: 1439-1453.

Rieseberg LH, Allan GJ, Bui Y, Greene J, Morrell PL et al. (1994) Genetic fingerprinting of various native California cultivars. Madrono 41: 30-38.

Carlquist S, Manchester SSR, Morrell PL (1993) Wood anatomy of the Sabiaceae (sl); ecological and systematics implications. Aliso 13: 521-549.

Page Updated: 03 May 2016