Calibrating the avian molecular clock

By Jason T. Weir, D. Schluter. Molecular Ecology, 2008

739 citations recorded by the source corpus.

Subfields: Ecological Modeling, Genetics, Paleontology

View Paper: https://www.semanticscholar.org/paper/c8e7a0fbf97343d00ada5dbe5167abe20dc779e7

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Ecological Modeling

1. E. Panov
2. K. Burns
3. L. Joseph
4. P. Ng
5. T. Wilke
6. K. Winker
7. D. Irwin
8. B. Smith

In Genetics

1. C. Albrecht
2. R. Schultheiß
3. D. Irwin
4. E. Panov
5. A. Rubtsov
6. L. Joseph
7. K. Burns
8. P. Ng

In Paleontology

1. E. Panov
2. K. Burns
3. L. Joseph
4. P. Ng
5. T. Wilke
6. K. Winker
7. D. Irwin
8. B. Smith

Citations in the corpus

• Cryptic genetic diversity in "widespread" Southeast Asian bird species suggests that Philippine avian endemism is gravely underestimated. (2010, background): “1% sequence divergence per million years was recently validated by comparing 74 bird fossil and biogeographic calibration points of varying ages with cytb sequence divergence (Weir and Schluter, 2008).”
• Phylogeography of the chestnut‐tailed antbird (Myrmeciza hemimelaena) clarifies the role of rivers in Amazonian biogeography (2012, methodology): “The widely used cyt b mutational rate of 2.1% sequence divergence per million years (0.0105 substitutions/site/lineage/million years) was applied (Weir & Schluter, 2008; Weir et al., 2009).”
• Phylogeography: its development and impact in Australo-Papuan ornithology with special reference to paraphyly in Australian birds (2009, background): “0% per million years (Fleischer et al.1998; also see Lovette 2004; Ho 2007; Weir and Schluter 2008), one infers that the hybridisation that caused this paraphyly likely occurred on the order of hundreds of thousands of years ago.”
• The profound influence of the Late-Pliocene Panamanian uplift on the exchange, diversification, and distribution of New World Birds (2010, result): “2009) however, other studies have shown that when analyzed carefully (as we have done here) divergence time estimates can be robust and informative (Weir and Schluter 2008).”
• Mitochondrial introgression and replacement between yellowhammers (Emberiza citrinella) and pine buntings (Emberiza leucocephalos) (Aves: Passeriformes) (2009, methodology): “DNA was extracted using a standard phenol–chloroform protocol.”
• Horizontal and elevational phylogeographic patterns of Himalayan and Southeast Asian forest passerines (Aves: Passeriformes) (2012, methodology): “…times between mitochondrial lineages, we applied a fixed mean substitution rate of 0.0105 substitutions per site per lineage per million years to the cyt b data sets – this estimate resulted from a re-evaluation by Weir & Schluter (2008) of more than 90 different avian clock calibrations.”
• Are the Northern Andes a species pump for Neotropical birds? Phylogenetics and biogeography of a clade of Neotropical tanagers (Aves: Thraupini) (2010, positive): “Assuming the generalized 2.1% nucleotide substitution rate Myr)1 for cyt b (Weir & Schluter, 2008), core tanager diversification began around 6.2 Ma using uncorrected patristic distances (maximum interspecific divergence = 13.1%).”
• As Time Goes by: A Simple Fool's Guide to Molecular Clock Approaches in Invertebrates* (2009, methodology): “To demonstrate different molecular clock approaches in our model taxon, the subfamily Pyrgulinae, we here use the two hydrobiid data sets of Wilke et al. (2007) for three largely independent clock analyses.”