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ARS Home » Southeast Area » Stoneville, Mississippi » Genomics and Bioinformatics Research » Research » Research Project #434717

Research Project: Applied Agricultural Genomics and Bioinformatics Research

Location: Genomics and Bioinformatics Research

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

Gene disruption by structural mutations drives selection in US rice breeding over the last century - (Peer Reviewed Journal)

Comparison of Homogenization Methods for Extraction of Maize Cob Metabolites - (Peer Reviewed Journal)

Under-the-radar dengue virus infections in natural populations of aedes aegypti mosquitoes Reprint Icon - (Peer Reviewed Journal)
Boyles, S., Mavian, C., Finol, E., Ukhanova, M., Stephenson, C., Hamerlinck, G., Kang, S., Baumgartner, C., Geesey, M., Rivers, A.R. 2020. Under-the-radar dengue virus infections in natural populations of aedes aegypti mosquitoes. mSphere. 5(2):e00316-20. https://doi.org/10.1128/mSphere.00316-20.

Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement Reprint Icon - (Peer Reviewed Journal)
Chen, Z., Sreedasyam, A., Ando, A., Song, Q., De Santiago, L., Hulse-Kemp, A.M., Ding, M., Ye, W., Kirkbride, R., Jenkins, J., Plott, C., Lovell, J., Yu-Ming, L., Vaughn, R., Liu, B., Simpson, S.A., Scheffler, B.E. 2020. Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement. Nature Genetics. https://doi.org/10.1038/s41588-020-0614-5.

Whole genome sequencing of Asia II 1 species of whitefly reveals that genes involved in virus transmission and insecticide resistance have genetic variances between Asia II 1 and MEAM1 species Reprint Icon - (Peer Reviewed Journal)
Hussain, S., Farooq, M., Malik, H., Amin, I., Scheffler, B.E., Scheffler, J.A., Liu, S., Mansoor, S. 2019. Whole genome sequencing of Asia II 1 species of whitefly reveals that genes involved in virus transmission and insecticide resistance have genetic variances between Asia II 1 and MEAM1 species. BMC Genomics. 20:507. https://doi.org/10.1186/s12864-019-5877-9.

QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science Reprint Icon - (Peer Reviewed Journal)
Bolyen, E., Rideout, J., Dillon, M., Bokulich, N., Abnet, C., Al-Ghalith, G., Alexander, H., Alm, E., Arumugam, M., Asnicar, F., Rivers, A.R. 2019. QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science. Nature Biotechnology. https://doi.org/10.1038/s41587-019-0209-9.

Chemical defense responses of upland cotton, Gossypium hirsutum L. to physical wounding Reprint Icon - (Peer Reviewed Journal)
Park, S., Scheffler, J.A., Scheffler, B.E., Cantrell, C.L., Pauli, C.S. 2019. Chemical defense responses of upland cotton, Gossypium hirsutum L. to physical wounding. Plant Direct. 3:5. https://doi.org/10.1002/pld3.141.

Crossword: A data-driven simulation language for the design of genetic-mapping experiments and breeding strategies Reprint Icon - (Peer Reviewed Journal)
Korani, W., Vaughn, J.N. 2019. Crossword: A data-driven simulation language for the design of genetic-mapping experiments and breeding strategies. bioRxiv. 9:4386. http://dx.doi.org/10.1101/330563.

ITSxpress: software to rapidly trim internally transcribed spacer sequences with quality scores for marker gene analysis Reprint Icon - (Peer Reviewed Journal)
Rivers, A.R., Weber, K.C., Gardner, T.G., Liu, S., Armstrong, S. 2018. ITSxpress: software to rapidly trim internally transcribed spacer sequences with quality scores for marker gene analysis. F1000Research. 7:1418. https://doi.org/10.12688/f1000research.15704.1.

Differential Gene Expression of Southern Highbush Blueberry cv. ‘O’Neal’ Floral Buds in Response to Freeze Treatment and Recovery Periods - (Abstract Only)

RNA-Seq Analysis of Floral Bud Response to Freeze Treatments in Southern Highbush Blueberry CV. ‘O’Neal’ - (Abstract Only)