John Welch

Research Interests

Molecular evolution.

I am now in the Department of Genetics, University of Cambridge. Group website


Total publications: 32
Testing for temporal signal in molecular dating.
Murray G, Wang F, Harrison EM, Paterson GK, Mather AE, Harris SR, Holmes MA, Rambaut A & Welch JJ (2015) Methods in Ecology and Evolution 7, 80?89.
Relaxed Phylogenetics and the Palaeoptera Problem: Resolving Deep Ancestral Splits in the Insect Phylogeny.
Thomas JA, Trueman JW, Rambaut A & Welch JJ (2012) Syst Biol 62, 285-297.
Molecular dating of human-to-bovid host jumps by Staphylococcus aureus reveals an association with the spread of domestication.
Weinert LA, Welch JJ, Suchard MA, Lemey P, Rambaut A & Fitzgerald JR (2012) Biology Letters 8, 829-832.
APOBEC3G-Induced Hypermutation of Human Immunodeficiency Virus Type-1 Is Typically a Discrete "All or Nothing" Phenomenon. .
Armitage AE, Deforche K, Chang C-H, Wee E, Kramer B, Welch JJ, Gerstoft J, Fugger L, McMichael A, Rambaut A & Iversen AKN (2012) PLoS Genetics 8, e1002550.
Multiple hybridizations between ancient brown and polar bears and an Irish origin for the modern polar bear matriline.
Edwards CJ, Suchard MA, Lemey P, Welch JJ, Barnes I, Fulton TL, Barnett R, O'Connell TC, Coxon P, Monaghan N, Valdiosera CE, Lorenzen ED, WIllerslev E, Baryshnikov GF, Rambaut A, Thomas MG, Bradley DG & Shapiro B (2011) Current Biology 15, 1251-1258.
Watching the Clock: Studying variation in rates of molecular evolution between species.
Lanfear R, Welch JJ & Bromham L (2010) Trends Ecol Evol 25, 495-503.
Phylogeography takes a relaxed random walk in continuous space and time.
Lemey P, Rambaut A, Welch JJ & Suchard MA (2010) Mol Biol Evol 27, 1877-1886.
The "island rule" and deep-sea gastropods: Re-examining the evidence.
Welch JJ (2010) PLoS One 5, e8776.
A generation time effect on the rate of molecular evolution in invertebrates.
Thomas JA, Welch JJ, Lanfear R & Bromham L (2010) Mol Biol Evol 27, 1173-1180.
Quantifying adaptive evolution in the Drosophila immune system: a high throughput approach.
Obbard DJ, Welch JJ, Kim K-W & Jiggins FM (2009) PLoS Genetics 5, e1000698.
Conjugation genes are common throughout the genus Rickettsia and are transmitted horizontally.
Weinert, LA, Welch JJ & Jiggins FM (2009) Proc Roy Soc B 276, 3619-3627.
Inferring selection in the Anopheles gambiae species complex: an example from immune-related serine protease inhibitors.
Obbard DJ, Welch JJ & Little TJ (2009) Malaria Journal 8, 117.
Reduced effectiveness of selection caused by a lack of recombination on the dot chromosome of Drosophila americana.
Betancourt AJ, Welch JJ & Charlesworth B (2009) Current Biology 19, 655-660.
Testing the Island Rule: Primates as a case study.
Welch JJ (2009) Proc Roy Soc B 276, 675-682.
Divergence and polymorphism under the nearly neutral theory of molecular evolution.
Welch JJ, Eyre-Walker A & Waxman D (2008) J Mol Evol 67, 418-26.
Conserved footprints of APOBEC3G on hypermutated HIV-1 and HERV-K(HML2) sequences.
Armitage AE, Katzourakis A, de Oliveira T, Welch JJ, Belshaw R, Bishop KN, Kramer B, McMichael AJ, Rambaut A & Iversen AKN (2008) J Virol 82, 8743-8761.
Correlates of substitution rate variation in mammalian protein-coding sequences.
Welch JJ, Bininda-Emonds ORP & Bromham L (2008) BMC Evol Biol 8, 53.
Calculating Independent Contrasts for the Comparative Study of Substitution Rates.
Welch JJ & Waxman D (2008) J Theor Biol 251, 667-678.
Metabolic rate does not calibrate the molecular clock.
Lanfear R, Thomas JA, Welch JJ, Brey T & Bromham L (2007) Proc Natl Acad Sci USA 104, 15388-15393.
The influence of body size and net diversification rate on molecular evolution during the radiation of animal phyla .
Fontanillas E, Welch JJ, Thomas JA & Bromham L (2007) BMC Evol Biol 7, 95.
Estimating the genomewide rate of adaptive protein evolution in Drosophila.
Welch JJ (2006) Genetics 173, 821-837.
There is no universal molecular clock for invertebrates, but rate variation does not scale with body size.
Thomas JA, Welch JJ, Woolfit M & Bromham L (2006) Proc Natl Acad Sci USA 103, 7366-7371.
Fisher's Microscope and Haldane's Ellipse.
Waxman D & Welch JJ (2005) Am Nat 166, 447-457.
A dissection of volatility in yeast.
Stoletzki N, Welch JJ, Hermisson J & Eyre-Walker A (2005) Mol Biol Evol 22, 2022-2026.
Molecular dates for the "Cambrian explosion": the influence of prior assumptions.
Welch JJ, Fontanillas E & Bromham L (2005) Syst Biol 54, 672-678.
Molecular dating when rates vary.
Welch JJ & Bromham L (2005) Trends Ecol Evol 20, 320-327.
The nk Model and Population Genetics.
Welch JJ & Waxman D (2005) J Theor Biol 234, 329-340.
Accumulating Dobzhansky-Muller incompatibilities: reconciling theory with data.
Welch JJ (2004) Evolution 58, 1145-1156.
Adaptation and Species Range.
Peck JR & Welch JJ (2004) Evolution 58, 211-221.
Modularity and the Cost of Complexity.
Welch JJ & Waxman D (2003) Evolution 57, 1723-1734.
Non-equivalent loci and mutation-selection balance.
Waxman D & Welch JJ (2003) Theor Pop Biol 63, 339-345.
Non-equivalent loci and the distribution of mutant effects.
Welch JJ & Waxman D (2002) Genetics 161, 897-904.
Andrew Rambaut, 2007