Publications by authors named "Nikos Poulakakis"

Article Synopsis
  • Galapagos giant tortoises, found only in the Galapagos Archipelago, exhibit distinct morphological, behavioral, and genetic traits, prompting debate over their classification as separate species due to recent divergences in their populations.
  • A study using advanced genetic methods on 38 tortoises revealed strong evidence against treating all tortoises as a single species; instead, it suggests a complex with at least 9 to potentially 13 distinct species.
  • The findings highlight varying levels of speciation, with some tortoise groups being further evolved as separate species than others, underscoring the urgency of conservation efforts for threatened island species.
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  • A genomic database encompassing all eukaryotic species on Earth is crucial for scientific advancements, yet most species lack genomic data.
  • The Earth BioGenome Project (EBP) was initiated in 2018 by global scientists to compile high-quality reference genomes for approximately 1.5 million recognized eukaryotic species.
  • The European Reference Genome Atlas (ERGA) launched a Pilot Project to create a decentralized model for reference genome production by testing it on 98 species, providing valuable insights into scalability, equity, and inclusiveness for genomic projects.
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  • The Battle of Crete during WWII saw German forces suffer substantial civilian resistance, leading to mass executions as retribution, including the execution of 18 males in the village of Adele.
  • This study is the first of its kind in Greece, identifying the victims' skulls through a request from the local community and utilizing advanced techniques like ancient DNA analysis and genome skimming.
  • The findings highlight the methodology as a promising forensic tool for identifying war victims from degraded DNA, offering potential for similar applications in Greece and other conflict zones.
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  • Cryptic diversity in species like Mediodactylus complicates biodiversity assessments and conservation, with past taxonomic changes highlighting hidden species.
  • Recent research identified five distinct species within the M. kotschyi complex using advanced genetic techniques, revealing some are endemic and possibly threatened.
  • A large-scale genomic analysis uncovered complex phylogenetic relationships and significant genetic differentiation among populations, suggesting the presence of even more undescribed species.
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After the domestication of goats around 10,000 years before the present (BP), humans transported goats far beyond the range of their wild ancestor, the bezoar goat. This brought domestic goats into contact with many wild goat species such as ibex and markhor, enabling introgression between domestic and wild goats. To investigate this, while shedding light on the taxonomic status of wild and domestic goats, we analysed genome-wide SNP data of 613 specimens from 14 taxonomic units, including Capra hircus, C.

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Article Synopsis
  • - The study maps human genetic diversity across regions like Anatolia, Iran, and the Aegean, highlighting changes from the early Neolithic period to more complex societal structures using a combination of ancient and modern genomes.
  • - Findings reveal that genetic diversity increased over time, with early Holocene populations in Southwest Asia and the East Mediterranean becoming more similar, followed by a divergence starting in the Bronze Age due to external gene flow, described as "the expanding mobility model."
  • - The research also uncovers a trend of increasing male bias in admixture events throughout the Holocene, which is measured using specific genetic distance methods that are more effective than traditional F statistics.
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Understanding intra-island patterns of evolutionary divergence, including cases of cryptic diversity, is a crucial step towards deciphering speciation processes. Cyprus is an oceanic island isolated for at least 5.3 Mya from surrounding continental regions, while it remains unclear whether it was ever connected to the mainland, even during the Messinian Salinity Crisis.

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High-throughput sequencing has enabled the comprehensive genetic exploration of biological diversity, especially by using natural history collections to study hard-to-find, threatened or even extinct-in-the-wild taxa. Mollusk shells are under-exploited as a source for DNA-based approaches, despite their apparent advantages in the field of conservation genetics. More particularly, degraded DNA techniques combined with high-throughput sequencing have never been used to gain insights about the DNA preservation in land snail subfossil or historical shells.

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The status of the Fernandina Island Galapagos giant tortoise (Chelonoidis phantasticus) has been a mystery, with the species known from a single specimen collected in 1906. The discovery in 2019 of a female tortoise living on the island provided the opportunity to determine if the species lives on. By sequencing the genomes of both individuals and comparing them to all living species of Galapagos giant tortoises, here we show that the two known Fernandina tortoises are from the same lineage and distinct from all others.

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The Galapagos Archipelago is recognized as a natural laboratory for studying evolutionary processes. San Cristóbal was one of the first islands colonized by tortoises, which radiated from there across the archipelago to inhabit 10 islands. Here, we sequenced the mitochondrial control region from six historical giant tortoises from San Cristóbal (five long deceased individuals found in a cave and one found alive during an expedition in 1906) and discovered that the five from the cave are from a clade that is distinct among known Galapagos giant tortoises but closely related to the species from Española and Pinta Islands.

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The Mediterranean Basin has experienced extensive change in geology and climate over the past six million years. Yet, the relative importance of key geological events for the distribution and genetic structure of the Mediterranean fauna remains poorly understood. Here, we use population genomic and phylogenomic analyses to establish the evolutionary history and genetic structure of common wall lizards (Podarcis muralis).

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Article Synopsis
  • * Mitochondrial DNA studies have categorized these species into two main subgroups: "P. tauricus" and "P. erhardii," highlighting the genetic relationships among them.
  • * By using advanced genetic sequencing methods, researchers confirmed the existence of all recently recognized species and identified at least two additional species within the groups, suggesting a need for re-evaluating the taxonomy of Podarcis in this region.
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Molecular species identification plays a crucial role in archaeology and palaeontology, especially when diagnostic morphological characters are unavailable. Molecular markers have been used in forensic science to trace the geographic origin of wildlife products, such as ivory. So far, only a few studies have applied genetic methods to both identify the species and circumscribe the provenance of historic wildlife trade material.

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Background: The Kastellorizo island group (in the Dodecanese, Greece) is situated in the southeast corner of the Aegean Archipelago. It consists of twenty islets, of which the three largest (Kastellorizo, Ro and Strongyli) and seven smaller ones belong to Greece. Knowledge of the malacofauna on the islands is relatively poor.

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Herein we present the recently founded Hellenic Evolutionary Society (HEVOS) that has been recently instituted to promote evolution and scientific thinking among the Greek-speaking public. HEVOS is a timely initiative, given the low levels of acceptance of evolution by Greek society and the almost complete lack of evolution teaching in primary and secondary education in Greece. Herein, the main aims of the Society are presented.

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The evolutionary history of taxa with limited overseas dispersal abilities is considered to be majorly influenced by vicariant events constituting them as model organisms for the interpretation of evolutionary processes. An excellent candidate are the wall lizards of the genus Podarcis exhibiting an impressive level of genetic and morphological diversification and harboring several cases of recently discovered cryptic diversity. In this study, we investigated the effect of palaeogeographic events on the wall lizards' biodiversity patterns in the Aegean (Greece) as well as the evolutionary processes that acted both in space and time.

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Giant tortoises are among the longest-lived vertebrate animals and, as such, provide an excellent model to study traits like longevity and age-related diseases. However, genomic and molecular evolutionary information on giant tortoises is scarce. Here, we describe a global analysis of the genomes of Lonesome George-the iconic last member of Chelonoidis abingdonii-and the Aldabra giant tortoise (Aldabrachelys gigantea).

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  • Natural interspecific hybridization in animals, particularly among cetaceans, may play a significant role in their evolution and speciation, influenced by factors like demographic traits and habitat disturbances.
  • This study presents evidence of natural hybridization between the common dolphin (Delphinus delphis) and the striped dolphin (Stenella coeruleoalba) in the Gulf of Corinth, using DNA analysis of 60 individuals to identify potential hybrids.
  • The hybrids found are fertile and can reproduce with both parental species, raising questions about their role in species evolution, gene flow, and the genetic status of common dolphins in the Mediterranean.
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High-throughput DNA sequencing allows efficient discovery of thousands of single nucleotide polymorphisms (SNPs) in nonmodel species. Population genetic theory predicts that this large number of independent markers should provide detailed insights into population structure, even when only a few individuals are sampled. Still, sampling design can have a strong impact on such inferences.

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Article Synopsis
  • * Researchers studied wall-lizard species from the region to understand their evolutionary processes using various genetic analysis methods.
  • * Their findings revealed distinct evolutionary lineages and showed that significant climatic and tectonic events influenced species divergence and genetic diversity.
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Kotschy's Gecko, Mediodactylus kotschyi, is a small gecko native to southeastern Europe and the Levant. It displays great morphological variation with a large number of morphologically recognized subspecies. However, it has been suggested that it constitutes a species complex of several yet unrecognized species.

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Background: Phlebotomine sand flies (Diptera: Psychodidae) are vectors of Leishmania spp., protozoan parasites responsible for a group of neglected diseases called leishmaniases. Two sand fly genera, Phlebotomus and Sergentomyia, contain species that are present in the Mediterranean islands of Crete and Cyprus where the visceral (VL), cutaneous (CL) and canine (CanLei) leishmaniases are a public health concern.

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