Hamid Reza GhanaviLund University | LU · Department of Biology
Hamid Reza Ghanavi
PhD
About
40
Publications
28,662
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Introduction
Hamid Reza Ghanavi currently works at the Department of Biology, Lund University as a postdoc. Hamid does research in Evolutionary Biology and Molecular Biology, focusing on phylogenomics, population genomics and bioinformatics.
Additional affiliations
March 2013 - June 2016
National Museum of Natural Sciences MNCN-CSIC
Position
- Researcher
October 2007 - April 2008
April 2006 - November 2012
Publications
Publications (40)
This is an annotated checklist of all recognized and named taxa of freshwater fishes of Iran, documenting recent changes and controversies in nomenclature, and including primary synonyms, updated from the Jouladeh-Roudbar et al. (2015b) checklist. We provide an updated comprehensive listing of taxonomy, diagnostic and meristic characters, names, an...
Models estimate that up to 80% of all butterfly and moth species host vertically transmitted endosymbiotic microorganisms, which can affect the host fitness, metabolism, reproduction, population dynamics, and genetic diversity, among others. The supporting empirical data are however currently highly biased towards the generally more colourful butte...
Biodiversity is in decline due to human-induced pressures on ecosystems around the world. To be able to counteract this alarming trend, it is paramount to closely monitor biodiversity at global scales. Because this is practically impossible with traditional methods, the last decade has seen a strong push for new solutions. In aquatic ecosystems , t...
The ability to perform genomic sequencing on long-dead organisms is opening new frontiers in evolutionary research. These opportunities are especially notable in the case of museum collections, from which countless documented specimens may now be suitable for genomic analysis—if data of sufficient quality can be obtained. Here, we report 25 newly s...
A long‐standing question in evolutionary biology is how historical biogeographic processes have shaped the current diversity of organisms, especially for highly diverse groups. We study the diversification dynamics and biogeographic processes of one of the most diverse families of Lepidoptera, Geometridae, with over 24,000 described species and a w...
Background
The endosymbiotic relationship between Wolbachia bacteria and insects has been of interest for many years due to their diverse types of host reproductive phenotypic manipulation and potential role in the host’s evolutionary history and population dynamics. Even though infection rates are high in Lepidoptera and specifically in butterflie...
Planthoppers (Hemiptera: Fulgoromorpha) are a species‐rich and globally distributed insect clade with high economic, ecological and evolutionary importance. However, the relationships among planthopper lineages and families remain unclear. Previous efforts based on inconsistent morphological traits, a few genes or limited sampling often resulted in...
Fishes from the genus Carasobarbus, widely distributed throughout the river systems of North Africa and West Asia, are commonly referred to as Himris. In the Persian Gulf basin, they are widespread and are also found in fast-flowing rivers or the deeper regions of lakes. In this region, representation of these fishes in scientific collections is sc...
Planthoppers (Hemiptera: Fulgoromorpha) are a species-rich and globally distributed insect clade with high economic, ecological, and evolutionary importance. However, the relationships among planthopper lineages and families remain unclear. Previous efforts based on inconsistent morphological traits, a few genes, or limited sampling often resulted...
Livestock guarding dogs (LGDs) have been used to protect livestock for millennia. While previous works suggested a single origin of modern LGDs, the degree and source of shared ancestry have not been tested. To address this, we generated genome-wide SNP data from 304 LGDs and combined it with public genomic data from 2,183 modern and 22 ancient dog...
Nemacheilid fishes in the genus Turcinoemacheilus are physically small members of the ichthyofauna communities of high-altitude and mountainous freshwater ecosystems. They are all distributed in Western Asia apart from a single species, described in the Himalayas. They are usually very similar in appearance, which complicates their proper identific...
Cabdio occidentalis, new species, is described from the Lake Mashkid basin and the Makran region of Iran. It is distinguished from other species of the genus by a combination of characters: 38–42+1–2 total lateral-line scales, 19–23 predorsal scales, 9–11 pectoral-fin rays, and the absence of a keel between the pelvic-fin base and the genital papil...
Guidelines identifying appropriate DNA extraction methods for both museum and modern biological samples are scarce or non-existent for mammalian species. Yet, obtaining large-scale genetic material collections are vital for conservation and management purposes. In this study, we evaluated five protocols making use of either spin-column, organic sol...
Here, we present multi-locus sequencing results from the enigmatic Afrotropical monotypic genus Egybolis Boisduval (occurring in East-and South Africa-previously placed in the subfamily Catocalinae, Noctuidae). Model-based phylogenetic analysis places Egybolis within a strongly supported clade comprising four Old World Tropical genera Cocytia Boisd...
Glyptothorax vatandousti, new species, from the upper Karkheh drainage, a tributary of the Iranian Tigris, is distinguished
from its congeners in the Persian Gulf basin by having the flank with a fine, pale-brown mottled pattern overlaid by small
and large, blackish or dark-brown blotches, deep caudal-peduncle (its depth 1.1–1.3 times in length), a...
Barbus urmianus, from the upper Mahabad River in Lake Urmia basin, was distinguished from B. cyri based on several morphological characters. Our analysis demonstrated very small molecular (COI) differences between both species and mostly overlapping or identic morphological character states. Therefore, Barbus urmianus is treated as a junior synonym...
The ability to perform genomic sequencing on long-dead organisms is opening new frontiers in evolutionary research. These opportunities are especially profound in the case of museum collections, from which countless documented specimens may now be suitable for genomic analysis. Here, we report 25 newly sequenced genomes from museum specimens of the...
Aim
Freshwater ecosystems host a rich biodiversity, including freshwater crabs. The family Potamidae is a diverse group of freshwater crabs with a Palearctic and Oriental distribution. Specifically, the genus Potamon is found in the Middle East, Southern Europe, and Northern Africa. Potamon species are considered true freshwater crabs due to their...
Here, we present multi-locus sequencing results from the enigmatic Afrotropical monotypic genus Egybolis Boisduval (occurring in East-and South Africa-previously placed in the subfamily Catocalinae, Noctuidae). Model-based phylogenetic analysis places Egybolis within a strongly supported clade comprising four Old World Tropical genera Cocytia Boisd...
The use of molecular data to study the evolutionary history of organisms has revolutionized the field of systematics. Now with the appearance of high throughput sequencing (HTS) technologies, more and more genetic sequence data are available. One of the important sources of genetic data for phylogenetic analyses has been mitochondrial DNA. The limi...
Freshwater ecosystems are under multiple threats in modern times such as water extraction for human consumption, industries and agricultural activities, water contamination and habitat destruction for example. At the same time the biodiversity of these ecosystems are often poorly studied, especially in arid countries such as Iran. In this work, we...
Cassava is a vital food-security crop in Sub-Saharan Africa. Cassava crops are, however, severely affected by viral diseases transmitted by members of the whitefly species complex Bemisia tabaci. We have here investigated the role of olfaction in host selection behavior of the cassava whitefly B. tabaci SSA-ESA biotype. Surprisingly, we find that t...
Models estimate that up to 80% of all butterfly and moth species host vertically transmitted endosymbiotic microorganisms, which can affect the host fitness, metabolism, reproduction, population dynamics, and genetic diversity, among others. The supporting empirical data are however currently highly biased towards the generally more colourful butte...
Biodiversity is in decline due to human land use, exploitation, and climate change. To be able to counteract this alarming trend it is paramount to closely monitor biodiversity at global scales. Because this is practically impossible with traditional methods, the last decade has seen a strong push for solutions. In aquatic ecosystems the monitoring...
The use of molecular data to study evolutionary history of different organisms, revolutionized the field of systematics. Now with the appearance of high throughput sequencing (HTS) technologies more and more genetic sequence data is available. One of the important sources of genetic data for phylogenetic analyses has been mitochondrial DNA. The lim...
The genus Eois Hübner (Geometridae: Larentiinae) comprises 254 valid species. Being a hyperdiverse genus, Eois potentially includes many undescribed cryptic species and embodies a problematic taxonomic scenario. The actual diversity of Eois is greatly underestimated and the Neotropical fauna needs to be well known since it figures as one of the mos...
Forficula auricularia (the European earwig) is possibly a complex of cryptic species. To test this hypothesis, we performed: (1) a phylogeographic study based on fragments of the mitochondrial COI and the nuclear ITS2 markers on a wide geographic sampling, (2) morphometric analyses of lineages present in Spain and (3) niche overlap analyses. We rec...
Our study aims to investigate the relationships of the major lineages within the moth family Geometridae, with a focus on the poorly studied Oenochrominae-Desmobathrinae complex, and to translate some of the results into a coherent subfamilial and tribal level classification for the family. We analyzed a molecular dataset of 1,206 Geometroidea term...
Secondary freshwater fish species inhabiting fluctuating and extreme environments are susceptible to changes in dispersion, effective population size, and genetic structure. The Iberian toothcarp Aphanius iberus is an endemic cyprinodontid of the Iberian Peninsula restricted to brackish water of salt marshes and coastal lagoons on the eastern Spani...
Traditionally small-scale populations of Capoeta in the Tigris River drainage are identified as Capoeta damascina. The recent finding revealed that some populations of small-scaled C. damascina species group are not identified as any described species. We examined these populations and the results showed that there are pronounced differences betwee...
A new species of algae-scraping cyprinid of the genus Capoeta Valenciennes, 1842 is described from the Kheyroud River, located in the southern part of the Caspian Sea basin in Iran. The species differs from other members of this genus by a combination of the following characters: one pair of barbels; predorsal length equal to postdorsal length; max...
The genus Capoeta in Iran is highly diversified with 14 species and is one of the most important freshwater fauna components of the country. Central Iran is a region with high number of endemism in other freshwater fish species, though the present species was recognized as C. aculeata (Valenciennes, 1844), widely distributed within Kavir and Namak...
The Middle East contains a great diversity of Capoeta species, but their taxonomy remains poorly described. We used mitochondrial history to examine diversity of the algae-scraping cyprinid Capoeta in Iran, applying the species-delimiting approaches General Mixed Yule-Coalescent (GMYC) and Poisson Tree Process (PTP) as well as haplotype network ana...
The group of small poor cods and pouts from the genus Trisopterus, belonging to the Gadidae family, comprises four described benthopelagic species that occur across the North-eastern Atlantic, from the Baltic Sea to the coast of Morocco, and the Mediterranean. Here, we combined molecular data from mitochondrial (cytochrome b) and nuclear (rhodopsin...
Questions
Questions (2)
I am looking for a protocol to index and pool big number of samples (>500), anyone knows how to? Any good advice? Based on the indexing method, different NGS technology (Illumina, PacBio ...) can be considered... But for now the idea is to prepare a library for Illumina.
Hello everyone,
I am thinking of working with information of different genes, and concatenate their sequences... So I was thinking are there any software to easily make your sequence matrix with different genes for the same samples? Right now I am using Geneious and concatenating the sequences one by one, but as I will start to work with a lot of samples I don't know if there are any simpler way.
Thank you in advance,
Hamid.
