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Extensive loss of RNA editing sites in rapidly evolving Silene mitochondrial genomes: selection vs. retroprocessing as the driving force.

Sloan DB, MacQueen AH, Alverson AJ, Palmer JD, Taylor DR.

Genetics. 2010 Aug;185(4):1369-80. doi: 10.1534/genetics.110.118000. Epub 2010 May 17.


Rapid evolution of enormous, multichromosomal genomes in flowering plant mitochondria with exceptionally high mutation rates.

Sloan DB, Alverson AJ, Chuckalovcak JP, Wu M, McCauley DE, Palmer JD, Taylor DR.

PLoS Biol. 2012 Jan;10(1):e1001241. doi: 10.1371/journal.pbio.1001241. Epub 2012 Jan 17.


Recent acceleration of plastid sequence and structural evolution coincides with extreme mitochondrial divergence in the angiosperm genus Silene.

Sloan DB, Alverson AJ, Wu M, Palmer JD, Taylor DR.

Genome Biol Evol. 2012;4(3):294-306. doi: 10.1093/gbe/evs006. Epub 2012 Jan 12.


Are substitution rates and RNA editing correlated?

Cuenca A, Petersen G, Seberg O, Davis JI, Stevenson DW.

BMC Evol Biol. 2010 Nov 11;10:349. doi: 10.1186/1471-2148-10-349.


The "fossilized" mitochondrial genome of Liriodendron tulipifera: ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate.

Richardson AO, Rice DW, Young GJ, Alverson AJ, Palmer JD.

BMC Biol. 2013 Apr 15;11:29. doi: 10.1186/1741-7007-11-29.


Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae.

Parkinson CL, Mower JP, Qiu YL, Shirk AJ, Song K, Young ND, DePamphilis CW, Palmer JD.

BMC Evol Biol. 2005 Dec 20;5:73.


Miniaturized mitogenome of the parasitic plant Viscum scurruloideum is extremely divergent and dynamic and has lost all nad genes.

Skippington E, Barkman TJ, Rice DW, Palmer JD.

Proc Natl Acad Sci U S A. 2015 Jul 7;112(27):E3515-24. doi: 10.1073/pnas.1504491112. Epub 2015 Jun 22.


Phylogenetic analysis of mitochondrial substitution rate variation in the angiosperm tribe Sileneae.

Sloan DB, Oxelman B, Rautenberg A, Taylor DR.

BMC Evol Biol. 2009 Oct 31;9:260. doi: 10.1186/1471-2148-9-260. Erratum in: BMC Evol Biol. 2010;10:12.


Extensive loss of translational genes in the structurally dynamic mitochondrial genome of the angiosperm Silene latifolia.

Sloan DB, Alverson AJ, Storchová H, Palmer JD, Taylor DR.

BMC Evol Biol. 2010 Sep 10;10:274. doi: 10.1186/1471-2148-10-274.


Did RNA editing in plant organellar genomes originate under natural selection or through genetic drift?

Jobson RW, Qiu YL.

Biol Direct. 2008 Oct 21;3:43. doi: 10.1186/1745-6150-3-43.


Conservative and compensatory evolution in oxidative phosphorylation complexes of angiosperms with highly divergent rates of mitochondrial genome evolution.

Havird JC, Whitehill NS, Snow CD, Sloan DB.

Evolution. 2015 Dec;69(12):3069-81. doi: 10.1111/evo.12808. Epub 2015 Nov 20.


Localized Retroprocessing as a Model of Intron Loss in the Plant Mitochondrial Genome.

Cuenca A, Ross TG, Graham SW, Barrett CF, Davis JI, Seberg O, Petersen G.

Genome Biol Evol. 2016 Aug 3;8(7):2176-89. doi: 10.1093/gbe/evw148.


Testing for selection on synonymous sites in plant mitochondrial DNA: the role of codon bias and RNA editing.

Sloan DB, Taylor DR.

J Mol Evol. 2010 May;70(5):479-91. doi: 10.1007/s00239-010-9346-y. Epub 2010 Apr 28.


Editing site analysis in a gymnosperm mitochondrial genome reveals similarities with angiosperm mitochondrial genomes.

Salmans ML, Chaw SM, Lin CP, Shih AC, Wu YW, Mulligan RM.

Curr Genet. 2010 Oct;56(5):439-46. doi: 10.1007/s00294-010-0312-4. Epub 2010 Jul 9.


Variation in mutation rate and polymorphism among mitochondrial genes of Silene vulgaris.

Barr CM, Keller SR, Ingvarsson PK, Sloan DB, Taylor DR.

Mol Biol Evol. 2007 Aug;24(8):1783-91. Epub 2007 May 28.


Unprecedented heterogeneity in the synonymous substitution rate within a plant genome.

Zhu A, Guo W, Jain K, Mower JP.

Mol Biol Evol. 2014 May;31(5):1228-36. doi: 10.1093/molbev/msu079. Epub 2014 Feb 19.


Cytonuclear interactions and relaxed selection accelerate sequence evolution in organelle ribosomes.

Sloan DB, Triant DA, Wu M, Taylor DR.

Mol Biol Evol. 2014 Mar;31(3):673-82. doi: 10.1093/molbev/mst259. Epub 2013 Dec 13.


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