Valentin Ruiz-del-Valle

The Old World sparrows (genus Passer) phylogeography and their relative abundance of nuclear mtDNA pseudogenes.

The phylogenetic relationships of genus Passer (Old World sparrows) have been studied with species covering their complete world living range. Mitochondrial (mt) cyt b genes and pseudogenes have been analyzed, the latter being strikingly abundant in genus Passer compared with other studied songbirds. The significance of these Passer pseudogenes is presently unclear. The mechanisms by which mt cyt b genes become pseudogenes after nuclear translocation are discussed together with their mode of evolution, i.e., transition/transversion mitochondrial ratio is decreased in the nucleus, as is the constraint for variability at the three codon positions. However, the skewed base composition according to codon position (in 1st position the percentage is very similar for the four bases, in 2nd position there are fewer percentage of A and G and more percentage of T, and in 3rd codon position fewer percentage of G and T and is very rich in A and C) is maintained in the translocated nuclear pseudogenes. Different nuclear internal mechanisms and/or selective pressures must exist for explaining this nuclear/mitochondrial differential DNA base evolutive variability. Also, the phylogenetic usefulness of pseudogenes for defining relationships between closely related lineages is stressed. The analyses suggest that the primitive genus Passer species comes from Africa, the Cape sparrow being the oldest: P. hispaniolensis italiae is more likely conspecific to P. domesticus than to P. hispaniolensis. Also, Passer species are not included within weavers or Estrildinae or Emberizinae, as previously suggested. European and American Emberizinae sparrows are closely related to each other and seem to be the earliest species that radiated among the studied songbirds (all in the Miocene Epoch).

Phylogeography of crossbills, bullfinches, grosbeaks, and rosefinches

Abstract: Mitochondrial cytochrome b (cyt b) from 24 Carduelini species including crossbills, bullfinches, grosbeaks, rosefinches, and other related, but not conclusively classified species, was sequenced. These sequences were also compared with all the available sequences from the genera Carduelis, Serinus, and Passer. Phylogenetic analyses consistently gave the same groups of finches and the calculated divergence times suggest that speciation of the studied species occurred between 14 and 3 million years ago (Miocene-Pliocene), appearing before the Passer, Carduelis, and Serinus genera. Pleistocene glaciations may have been important in subspeciation. Crossbills are integrated within the genus Carduelis, and within redpolls; the common crossbill shows subspeciation with Loxia japonica in the Pleistocene epoch. Pinicola enucleator groups together with bullfinches and is probably the ancestor of the group. Hawfinch is only distantly related to the studied groups, and might either represent an isolated genus or be related to the New World genus Hesperiphona. The grosbeak genera Eophona and Mycerobas are clearly sister groups, and species belonging to the former might have given rise to Mycerobas species. The isolated (in classification) Uragus sibiricus and Haematospiza sipahi are included within the genus Carpodacus (rosefinches); Carpodacus nipalensis is outside the genus Carpodacus in the molecular analyses and might be an isolated species or related to the genus Montifringilla.

Mitochondrial DNA Phylogenetic Definition of a Group of 'Arid-Zone' Carduelini Finches

Birds included within the Carduelini tribe (genera Rhodopechys, Carpodacus and Leucosticte) apparently be- long to the same radiation according to molecular phylogenetic analyses. Our phylogenetic analyses based on nucleotide sequences of the cytochrome b gene (cyt-b) indicate that some of these birds (Rhodopechys mongolica, R. githaginea and Carpodacus nipalensis) do not cluster together with their respective phenetically defined allies. This new group of birds thrives in both hot and cold arid zones and are phenetically distinct, probably because of their adaptation to different ex- treme environments. Both maximum likelihood and Bayesian inference methods support the existence of this new evolu- tionary basal group among finches which might have originated about 14 million years ago.

Both morphological and molecular characters support speciation of South American siskins by sexual selection

Abstract. South American siskin radiation was studied by both mitochondrial cytochrome b (mt cyt b) DNA sequencing and homologous phenotypic characters; the latter were coded separately according to sex. Mixed phenetic and molecular (total evidence) dendrograms were constructed and the corresponding analyses suggest that speciation started in the South American siskin group with a north to south separation (Carduelis notata/C. barbata) along the Andean spine. A second split may have taken place around the Peruvian Andean mountains, corresponding to the present distribution pattern of C. olivacea. The most recent speciation events seem to have occurred in three sister species pairs: (i) C. xanthogastra/C. atrata, (ii) C. magellanica/C. yarrellii, (iii) C. cucullata/C. crassirostris. Accumulation of consistent characters in both morphological and molecular data at the basal nodes of the dendrograms indicate that speciation events occurred within a short period of time. Our data also suggest that speciation probably occurred by sexual selection through female mating choice in this radiation. Additionally, studies of variable amino acid residues in the mt cyt b molecule show that the three variable amino acids found are placed in the mitochondrial transmembrane region, which is also part of the hypervariable region in mammals. Each of the three amino acid changes occur in each of the three postulated evolutionary groups.

Rhodopechys obsoleta (desert finch): a pale ancestor of greenfinches (Carduelis spp.) according to molecular phylogeny

The evolutionary history of three out of four birds traditionally classified into the genus Rhodopechys birds has been studied by comparing their mitochondrial cytochrome b DNA sequence with that of greenfinches and other genus Carduelis finches. The desert finch (Rhodopechys obsoleta) or a sister extinct species seems to have existed about 6 million years ago in Asian and perhaps African desert-like areas. This bird has no molecular relationship with other Rhodopechys birds and seems to have given rise to the greenfinches radiation, probably by allopatry of marginal or isolated groups; the latter would have evolved to green plumage colours and more simple song modulations (i.e., greenfinches). The possible role of assortative mating and the newly postulated acquired phenotypic characters in greenfinches speciation are discussed.

Rhodopechys obsoleta (desert finch): a pale ancestor of greenfinches (Carduelis

The evolutionary history of three out of four birds traditionally classified into the genus Rhodopechys birds has been studied by comparing their mitochondrial cytochrome b DNA sequence with that of greenfinches and other genus Carduelis finches. The desert finch (Rhodopechys obsoleta) or a sister extinct species seems to have existed about 6 million years ago in Asian and perhaps African desert-like areas. This bird has no molecular relationship with other Rhodopechys birds and seems to have given rise to the greenfinches radiation, probably by allopatry of marginal or isolated groups; the latter would have evolved to green plumage colours and more simple song modulations (i.e., greenfinches). The possible role of assortative mating and the newly postulated acquired phenotypic characters in greenfinches speciation are discussed.

Three Different North American Siskin/Goldfinch Evolutionary Radia- tions (Genus Carduelis): Pine Siskin Green Morphs and European Siskins in America

Three separate and parallel North American Carduelis evolutionary radiations have been identified. North American siskin radiation (starting about 2.7 million years ago) comprises siskin, Antillean siskin, black-capped siskin, pine siskin and pine siskin perplexus. C. spinus could have passed to America through the Beringia or Greenland coast and, during Pliocene Epoch, reached the Antilles and evolved into Antillean siskin (C. dominicensis), endemic to Hispaniola Island. It is ancestor of pine siskin. Pine Siskin, also a sister taxon of C. spinus, thrives in North America from Alaska to Guatemala since about 0.2 MYA. It lives below the Mexican Isthmus in the highlands from northern Chiapas (Mexico) to western Guatemala. Black-capped siskin (C. atri- ceps) is a sister species of C. spinus, with which it shares habitat and territory. C. pinus green-backed morphs may have been mis- taken by C. atriceps which is a grey-backed finch. Mesoamerican goldfinch radiation (starting about 5 million years ago) includes C. tristis (American goldfinch), C. psaltria (lesser goldfinch) and C. lawrencei (Lawrences goldfinch). They all thrive in west- ern United States and Mexico, down to northern South America. C. psaltria is a North American bird that colonized South American habitats to North Peru and evolved into darker head and back while going southwards. South American siskin radiation started about 3.5 million years ago; parental C. notata thrives in Mexican mountains and successfully colonized South America, giv- ing rise to this radiation. South American Carduelis radiation occurred only when mesothermal plants from the Rocky Mountains invaded the Andean spine after emergence of the Panama Isthmus.

What Might have been the Ancestor of New World Siskins?~!2008-08-04~!2008-10-29~!2008-12-05~!

Eurasian Carduelis spinus (siskin) has given rise to the C.pinus (pine siskin) North American radiation,which includes C.dominicensis, C.p. perplexus and C.atriceps . It is addressed the question why C.spinus is not thriving now in America.

Malta and Lanzarote (Canary Islands, Spain) cart-ruts and rock prehistoric calendar at Zonzamas, Lanzarote -"Quesera"/Cheeseboard

It is noticed that the abundant Malta cart-ruts fabrication by different cut shape in rocks is similar to “Quesera”/Cheeseboard Lanzarote rock prehistoric lunisolar calendar building. Even more, some Malta cart-ruts associated structures are similar to this Lanzarote rock calendar. Cart-ruts are hand made artifacts that in Malta started to be built up at Bronze Age; at present, they may be found throughout all Mediterranean area (North and South) and also in Atlantic islands, including Lanzarote, as described in this paper, British Islands and Azores. Rock calendar-like structures in Malta are associated to cart-ruts; we have analyzed those at San Gwan, Ta Cenc and San Pawl tat-Targa. It is uncertain whether they might have been used as calendars. Cart-rut purposes have been debated. Some of them may be associated to water collection, but their use to bear vehicles is not credible for many of them are constructed on steep hills, or even top of mountains, and with no sign of vehicles or living beings close to them. We put forward an astronomical /religious purpose for some of them to measure time and directions (space), like most Malta temples do have, i.e.: main door oriented to South, Summer Solstice marking and a Sun calendar throughout 12 months starting June 21st (Mnajdra and Hagar Qim temples). Search of a universal purpose for all extant cart-ruts in all areas, which are time stratified, is not a right approach for us. Keywords: Malta, Cart-ruts, Lanzarote, Quesera/Cheeseboard, Lunisolar calendar, Iberian writing, Guanche writing, Zonzamas, Canary Islands, Guanches, Majos, Archaeoastronomy

Major Histocompatibility Complex Allele Persistence in Eurasia and America in the Genus During Million Years

Genus Carduelis (Fringillidae family) includes goldfinches, siskins, redpolls, greenfinches and crossbills. Many of the species classified within this genus and other related genera have been grouped by using molecular systematics and the mitochondrial cytochrome b (mt cyt b) gene. According to this, the Eurasian siskin (C. spinus) is the only one extant direct ancestor of several North American finches; North American / South American radiations may have been originated by Eurasian siskin (or extinct relative). In the present work, we aim to perform a study of transpecies and transcontinental analyses of MHC (Major Histocompatibility Complex) Class I alleles in several genus Carduelis / Spinus species in order to draw evolutionary conclusions in several wild bird species belonging to the genus Carduelis / Spinus.