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Items: 12

1.

Overcoming the loss of blue sensitivity through opsin duplication in the largest animal group, beetles.

Sharkey CR, Fujimoto MS, Lord NP, Shin S, McKenna DD, Suvorov A, Martin GJ, Bybee SM.

Sci Rep. 2017 Jan 31;7(1):8. doi: 10.1038/s41598-017-00061-7.

2.

Total evidence phylogeny and the evolution of adult bioluminescence in fireflies (Coleoptera: Lampyridae).

Martin GJ, Branham MA, Whiting MF, Bybee SM.

Mol Phylogenet Evol. 2017 Feb;107:564-575. doi: 10.1016/j.ympev.2016.12.017. Epub 2016 Dec 18.

PMID:
27998815
3.

Opsins have evolved under the permanent heterozygote model: insights from phylotranscriptomics of Odonata.

Suvorov A, Jensen NO, Sharkey CR, Fujimoto MS, Bodily P, Wightman HM, Ogden TH, Clement MJ, Bybee SM.

Mol Ecol. 2017 Mar;26(5):1306-1322. doi: 10.1111/mec.13884. Epub 2016 Nov 5.

PMID:
27758014
4.

The OGCleaner: filtering false-positive homology clusters.

Fujimoto MS, Suvorov A, Jensen NO, Clement MJ, Snell Q, Bybee SM.

Bioinformatics. 2017 Jan 1;33(1):125-127. doi: 10.1093/bioinformatics/btw571. Epub 2016 Sep 10.

PMID:
27614349
5.

A cure for the blues: opsin duplication and subfunctionalization for short-wavelength sensitivity in jewel beetles (Coleoptera: Buprestidae).

Lord NP, Plimpton RL, Sharkey CR, Suvorov A, Lelito JP, Willardson BM, Bybee SM.

BMC Evol Biol. 2016 May 18;16(1):107. doi: 10.1186/s12862-016-0674-4.

6.

Reassessing the phylogenetic position of the epizoic earwigs (Insecta: Dermaptera).

Naegle MA, Mugleston JD, Bybee SM, Whiting MF.

Mol Phylogenet Evol. 2016 Jul;100:382-90. doi: 10.1016/j.ympev.2016.03.012. Epub 2016 Mar 24.

PMID:
27033951
7.

Detecting false positive sequence homology: a machine learning approach.

Fujimoto MS, Suvorov A, Jensen NO, Clement MJ, Bybee SM.

BMC Bioinformatics. 2016 Feb 24;17:101. doi: 10.1186/s12859-016-0955-3.

8.

Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms.

Speiser DI, Pankey MS, Zaharoff AK, Battelle BA, Bracken-Grissom HD, Breinholt JW, Bybee SM, Cronin TW, Garm A, Lindgren AR, Patel NH, Porter ML, Protas ME, Rivera AS, Serb JM, Zigler KS, Crandall KA, Oakley TH.

BMC Bioinformatics. 2014 Nov 19;15:350. doi: 10.1186/s12859-014-0350-x.

9.

UV photoreceptors and UV-yellow wing pigments in Heliconius butterflies allow a color signal to serve both mimicry and intraspecific communication.

Bybee SM, Yuan F, Ramstetter MD, Llorente-Bousquets J, Reed RD, Osorio D, Briscoe AD.

Am Nat. 2012 Jan;179(1):38-51. doi: 10.1086/663192. Epub 2011 Dec 5.

PMID:
22173459
10.

Targeted amplicon sequencing (TAS): a scalable next-gen approach to multilocus, multitaxa phylogenetics.

Bybee SM, Bracken-Grissom H, Haynes BD, Hermansen RA, Byers RL, Clement MJ, Udall JA, Wilcox ER, Crandall KA.

Genome Biol Evol. 2011;3:1312-23. doi: 10.1093/gbe/evr106. Epub 2011 Oct 13.

11.

Positive selection of a duplicated UV-sensitive visual pigment coincides with wing pigment evolution in Heliconius butterflies.

Briscoe AD, Bybee SM, Bernard GD, Yuan F, Sison-Mangus MP, Reed RD, Warren AD, Llorente-Bousquets J, Chiao CC.

Proc Natl Acad Sci U S A. 2010 Feb 23;107(8):3628-33. doi: 10.1073/pnas.0910085107. Epub 2010 Feb 2.

12.

A phylogeny of robber flies (Diptera: Asilidae) at the subfamilial level: molecular evidence.

Bybee SM, Taylor SD, Riley Nelson C, Whiting MF.

Mol Phylogenet Evol. 2004 Mar;30(3):789-97.

PMID:
15012956

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