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Loïs Rancilhac @loisrancilhac.bsky.social · Sep 1

Now available in published format, open access! academic.oup.com/sysbio/advan...

Loïs Rancilhac @loisrancilhac.bsky.social · May 26

I think that acknowledging the subjective nature of species delimitation and that in many cases different taxonomic decisions are reasonable would also help moving away from endless “species concept” debates (12/)

Loïs Rancilhac @loisrancilhac.bsky.social · May 26

I think this points to a need for the fields of taxonomy and speciation to work more integratively towards understanding species diversification. Taxonomic classification can then be seen as a bi-product of a better understanding of speciation rather than an end in itself (11/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

(To be clear, I’m not arguing against integrative taxonomy as a general approach. I think it works in many cases, but remains flawed if the link between the characteristics studied and speciation is not understood (10/))

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

Bearing that in mind, studying the biological causes of phenotypic/genetic variation should be much more informative about species limits than just quantifying differences in many characteristics (9/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

This gives the perception that populations with more differences should be at a later stage of the speciation continuum and thus more likely to be considered taxonomic species. But there are many examples in nature contradicting this linear perception (8/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

I think this traces back to the “universal species concept” which conveys a view of speciation where differences corresponding to specific concepts are accumulated linearly as lineages become species. (7/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

The blog post suggests that integrative taxonomy should be applied in such a case. I disagree. Different lines of evidence should be considered for species delimitation only if they can inform about the process of speciation versus alternative processes (6/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

There is no indication that redpolls are at an intermediate stage in a continuum between one and multiple species. Rather, phenotypic variation is maintained by selection in the face of homogeneizing gene flow, apparently without participating in reproductive isolation (5/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

The redpolls cited in the blog post are a good example here because the latest evidence suggests that the phenotypic variation that originally led to several species being described is due to local adaptation along a latitudinal gradient. (4/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

This emphasis on the “gray area” as an intermediate state in the speciation process is rather flawed because there are many biological processes that generate phenotypic and genetic divergence (discrete or continuous) without being necessarily related to speciation (3/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

The “universal species concept” kind of acknowledges that with its “gray area” of speciation, but this gives a deterministic view of speciation where satisfying a single species concept is already evidence enough that two species exist (2/)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 26

I totally agree that species are a thing but I think this analysis misses a major issue with modern taxonomy: we are trying to classify organisms into discrete categories although it is now clear that speciation is a continuous and reversible process (1/)

Jente Ottenburghs | Avian Hybrids @jenteo.bsky.social · May 26

Your daily Avian Hybrids story!

A philosopher claims species do not exist. He is wrong.
avianhybrids.wordpress.com/2019/07/18/a...

#ornithology

A philosopher claims species do not exist. He is wrong.

What is a species?

avianhybrids.wordpress.com

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Reposted by Loïs Rancilhac

Paul Doniol-Valcroze @pdvsky.bsky.social · May 24

Very glad to see the second chapter of my PhD published in JEB and feel honored that it has been picked as this month's issue "Editor's choice" and cover image! It's been a long and important team effort leading up to these results!

Journal of Evolutionary Biology @jevbio.bsky.social · May 20

The May issue of JEB is now online! Read it here:

academic.oup.com/jeb/issue/38/5

📸 Coenonympha arcania: part of an intriguing species complex in which two hybrid species have inherited most of their genome from one parent species but prefer mating with the other! Photo Credit - Riccardo Poloni

Volume 38 Issue 5 | Journal of Evolutionary Biology | Oxford Academic

Journal of Evolutionary Biology

academic.oup.com

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

It seems the link to the paper in the first post does not work, so here it is again: academic.oup.com/sysbio/advan...

Introgression across narrow contact zones shapes the genomic landscape of phylogenetic variation in an African bird clade

Abstract. Genomic analyses of hybrid zones provide excellent opportunities to investigate the consequences of introgression in nature. In combination with

academic.oup.com

Loïs Rancilhac @loisrancilhac.bsky.social · May 14

This is part of broader work on speciation and color evolution in tinkerbirds led by @akirschel.bsky.social. Thanks a lot to him and to all co-authors, as well as reviewers and editors at Syst Biol. (10/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

Another cool result is that the gene CYP2J19, coding for red v. yellow forecrown, supports the species tree, while surrounding regions support an 'introgressed' topology. It also shows a deeper divergence between Red-fronted taxa, further supporting a single ancient origin the red coloration. (9/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

We studied RADseq markers across two hybrid zones and found that, although geographic clines tended to be narrow, markers in regions supporting putative 'introgressed' topologies followed wider clines. This supports that contemporary gene flow indeed contributes to gene-tree heterogeneity. (8/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

The question we asked is whether gene-tree heterogenity is driven by ongoing introgression through hybrid zones, or is a legacy of past gene flow when reproductive isolation may have been weaker. (7/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

When inferring a phylogeny using only regions of the genome with very low recombination rate (and low introgression rate), we recovered another topology where Red-fronted tinkerbirds are monophyletic. We believe this best represents the species tree of this group. (6/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

We found that this topology was over-represented in regions of the genome with a high recombination rate, which also show increased introgression rate. It is then likely that this topology reflects introgression. (5/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

However, we also found substantial variation in phylogenetic signal across the genome. The aforementionned topology, although being the most common, is only supported by ~15% of the genome. (4/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

When building a phylogeny using whole-genome data, we recovered a fully-supported topology where Red- and Yellow-fronted lineages are not reciprocally monophyletic. (3/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

We studied Red- and Yellow-fronted Tinkerbirds, which form several hybrid zones across Africa. (2/10)

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Loïs Rancilhac @loisrancilhac.bsky.social · May 14

Very happy to share a new paper open access in Syst Biol. Introgression is commonly reported in phylogenomic studies, but whether these patterns are caused by ancestral or contemporary gene flow is rarely understood. Here we took a stab at this problem using parapatric tinkerbirds as a model (1/10)

academic.oup.com

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