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United States Department of Agriculture

Agricultural Research Service

Related Topics

Research Project: Genomics and Bioinformatics Research in Agriculturally Important Organisms

Location: Genomics and Bioinformatics Research

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Frequent Occurrence of Tomato Leaf Curl New Delhi Virus in Cotton Leaf Curl Disease Affected Cotton in Pakistan - (Peer reviewed journal)
Zaidi, S.S., Shafiq, M., Amin, I., Scheffler, B.E., Scheffler, J.A., Briddon, R.W., Mansoor, S. 2016. Frequent Occurrence of Tomato Leaf Curl New Delhi Virus in Cotton Leaf Curl Disease Affected Cotton in Pakistan. PLoS One. DOI:10.1371/journal.pone.0155520.

Genomic resources for water yam (Dioscorea alata L.): analyses of EST-Sequences, De Novo sequencing and GBS libraries - (Peer reviewed journal)
Saski, C.A., Bhattacharjee, R., Scheffler, B.E., Asiedu, R. 2015. Genomic resources for water yam (Dioscorea alata L.): analyses of EST-Sequences, De Novo sequencing and GBS libraries. PLoS One. doi:10.1371/journal.pone.0134031.

Metabolomic and transcriptomic insights into how cotton fiber transitions to secondary wall sythesis, represses lignification, and prolongs elongation Reprint Icon - (Peer reviewed journal)
Tuttle, J.R., Nah, G., Duke, M.V., Alexander, D.C., Guan, X., Song, Q., Chen, Z.J., Scheffler, B.E., Haigler, C.H. 2015. Metabolomic and transcriptomic insights into how cotton fiber transitions to secondary wall sythesis, represses lignification, and prolongs elongation. Biomed Central (BMC) Genomics. 16:477. doi:10.1186/s12864-015-1708-9.

Chloroplast microsatellite markers for Artocarpus (Moraceae) developed from transcriptome sequences - (Peer reviewed journal)
Gardner, E.M., Laricchia, K.M., Murphy, M., Ragone, D., Scheffler, B.E., Simpson, S.A., Williams, E., Zerega, N.C. 2015. Chloroplast microsatellite markers for Artocarpus (Moraceae) developed from transcriptome sequences. Applications in Plant Sciences. 3(9):1500049. doi:10.3732/apps.1500049.

Transcriptomic changes in zebrafish embryos and larvae following benzo[a]pyrene exposure - (Peer reviewed journal)
Fang, X., Corrales, J., Thornton, C., Clerk, T., Scheffler, B.E., Willett, K.L. 2015. Transcriptomic changes in zebrafish embryos and larvae following benzo[a]pyrene exposure. Toxicological Sciences. 146(2):395-411. doi: 10.1093/toxsci/kfv105..

The first nearly cryptic Scorpionfly (Mecoptera: Panorpidae) from North America - (Peer reviewed journal)
Bicha, W., Schiff, N., Lancaster, A., Scheffler, B.E. 2015. The first nearly cryptic Scorpionfly (Mecoptera: Panorpidae) from North America. Zootaxa. 3973(3):591–600. doi.org/10.11646/zootaxa.3973.3.12.

BAC-end sequence-based SNP mining in Allotetraploid Cotton (Gossypium) utilizing re-sequencing data, phylogenetic inferences and perspectives for genetic mapping - (Peer reviewed journal)
Hulse-Kemp, A.M., Hamid, A., Stoffel, K., Pepper, A.E., Saski, C., Scheffler, B.E., Fang, D.D., Chen, Z., Van Deynze, A., Zheng, X., Stelly, D.M. 2015. BAC-end sequence-based SNP mining in Allotetraploid Cotton (Gossypium) utilizing re-sequencing data, phylogenetic inferences and perspectives for genetic mapping. Genes, Genomes, and Genomics. 5:1095-1105. doi:10.1534/g3.115.017749/-/DC1.

Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement - (Peer reviewed journal)
Zhang, T., Hu, Y., Jiang, W., Fang, L., Guan, X., Chen, J., Zhang, J., Saski, C., Scheffler, B.E., Stelly, D.M., Hulse-Kemp, A.M., Wan, Q., Liu, B., Liu, C., Wang, S., Pan, M., Wang, Y., Wang, D., Ye, W., Chang, L., Zhang, W., Song, Q., Kirkbride, R.C., Chen, X., Dennis, E., Llewellyn, D.J., Peterson, D.G., Thaxton, P., Jones, D.C., Wang, Q., Xu, X., Zhang, H., Wu, H., Zhou, L., Mei, G., Chen, S., Tian, Y., Xiang, D., Li, X., Ding, J., Zuo, Q., Tao, L., Liu, Y., Li, J., Lin, Y., Hui, Y., Cao, Z., Cai, C., Zhu, X., Jiang, Z., Zhou, B., Guo, W., Li, R., Chen, Z. 2015. Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement. Nature Biotechnology. 33(5):531-537. doi:10.1038/nbt.3207.

Development of microsatellites from Fothergilla xintermedia (Hamamelidaceae) and cross transfer to four other genera within Hamamelidaceae Reprint Icon - (Peer reviewed journal)
Hatmaker, E., Wadl, P.A., Mantooth, K., Scheffler, B.E., Ownley, B.H., Trigiano, R.N. 2015. Development of microsatellites from Fothergilla xintermedia (Hamamelidaceae) and cross transfer to four other genera within Hamamelidaceae. Applications in Plant Sciences. 3(4):1400123. doi.org/10.3732/apps.1400123. Availiable: http://www.bioone.org/doi/full/10.3732/apps.1400123.

Whole genome sequencing of elite rice cultivars as a comprehensive information resource for marker assisted selection - (Peer reviewed journal)
Duitama, J., Silva, A., Sanabria, Y., Cruz, D., Quintero, C., Ballen, C., Lorieux, M., Scheffler, B.E., Farmer, A., Torres, E., Oard, J., Tohme, J. 2015. Whole genome sequencing of elite rice cultivars as a comprehensive information resource for marker assisted selection. PLoS One. 10(4):e0124617. doi:10.1371/journal.pone.0124617.

Development of microsatellites from Cornus mas L. (Cornaceae) and characterization of genetic diversity of cornelian cherries from China, central Europe, and the United States Reprint Icon - (Peer reviewed journal)
Wadl, P.A., Szyp-Borowska, I., Piórecki, N., Schlarbaum, S.E., Scheffler, B.E., Trigiano, R.N. 2014. Development of microsatellites from Cornus mas L. (Cornaceae) and characterization of genetic diversity of cornelian cherries from China, central Europe, and the United States. Scientia Horticulturae. 179:314-320.

Characterization of 12 polymorphic microsatellite loci of Pityopsis graminifolia var. latifolia Reprint Icon - (Peer reviewed journal)
Boggess, S.L., Wadl, P.A., Hadziabdic, D., Scheffler, B.E., Windham, A.S., Klingeman, W.E., Trigiano, R.N. 2014. Characterization of 12 polymorphic microsatellite loci of Pityopsis graminifolia var. latifolia. Conservation Genetics. 6(4):1043-1045. DOI: 10.1007/s12686-014-0282-9.

Effects on specific promoter DNA methylation in zebrafish embryos and larvae following benzo[a]pyrene exposure - (Peer reviewed journal)
Corrales, J., Fang, X., Thornton, C., Mei, W., Barbazuk, B.W., Duke, M.V., Scheffler, B.E., Willett, K.L. 2014. Effects on specific promoter DNA methylation in zebrafish embryos and larvae following benzo[a]pyrene exposure. Comparative Biochemistry and Physiology. Part C 163 (2014): 37-46.

Complete genome sequence of channel catfish gastrointestinal sepicemia isolate Edwardsiella tarda C07-087 Reprint Icon - (Peer reviewed journal)
Tekedar, H.C., Karsi, A., Williams, M.L., Vamenta, S., Banes, M.M., Duke, M.V., Scheffler, B.E., Lawrence, M.L. 2013. Complete genome sequence of channel catfish gastrointestinal sepicemia isolate Edwardsiella tarda C07-087. American Society for Microbiology. 1(6):e00959-13. doi:10.1128/genomeA.00959-13.

Last Modified: 2/23/2016
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