Online resources for chromosome number databases

Peruzzi, Lorenzo; Bedini, Gianni

doi:10.1080/0144235x.2014.974358

Cited by 17 publications

(12 citation statements)

References 33 publications

(25 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Databases present a valuable source of information for research on a wide range of topics, including species inventories, cytogenetics of some key groups, chromosomal mapping of rDNA, and even complete genomic sequences [Peruzzi and Bedini, 2014;Jarvis et al, 2015;Cardoso et al, 2018;Gill and Donsker, 2018; Paresque et al,…”

confidence: 99%

Introducing the Bird Chromosome Database: An Overview of Cytogenetic Studies in Birds

Degrandi

Barcellos

Costa

et al. 2020

Cytogenet Genome Res

View full text Add to dashboard Cite

birdchromosomedatabase) we have compiled data on the chromosome numbers of 1,067 bird species and chromosome painting data on 96 species. We found considerable variation in the diploid numbers, which ranged from 40 to 142, although most (around 50%) of the species studied up to now have between 78 and 82 chromosomes. Despite its importance for cytogenetic research, chromosome painting has been applied to less than 1% of all bird species. The BCD will enable researchers to identify the main knowledge gaps in bird cytogenetics, including the most under-sampled groups, and make inferences on chromosomal homologies in phylogenetic studies. © 2020 S. Karger AG, BaselDatabases present a valuable source of information for research on a wide range of topics, including species inventories, cytogenetics of some key groups, chromosomal mapping of rDNA, and even complete genomic sequences [Peruzzi and Bedini, 2014;Jarvis et al., 2015;Cardoso et al., 2018;Gill and Donsker, 2018; Paresque et al., AbstractBird chromosomes, which have been investigated scientifically for more than a century, present a number of unique features. In general, bird karyotypes have a high diploid number (2n) of typically around 80 chromosomes that are divided into macro-and microchromosomes. In recent decades, FISH studies using whole chromosome painting probes have shown that the macrochromosomes evolved through both inter-and intrachromosomal rearrangements. However, chromosome painting data are available for only a few bird species, which hinders a more systematic approach to the understanding of the evolutionary history of the enigmatic bird karyotype. Thus, we decided to create an innovative database through compilation of the cytogenetic data available for birds, including chromosome numbers and the results of chromosome painting with chicken ( Gallus gallus ) probes. The data were obtained through an extensive literature review, which focused on cytogenetic studies published

show abstract

confidence: 99%

Introducing the Bird Chromosome Database: An Overview of Cytogenetic Studies in Birds

Degrandi

Barcellos

Costa

et al. 2020

Cytogenet Genome Res

View full text Add to dashboard Cite

show abstract

“…Despite the interest in chromosome number evolution over the last decades 21 – 24 , in the absence of studies linking changes of chromosome number to natural selection, it is impossible to identify the adaptive function of such variation. At present, an adaptive role has been demonstrated for other genomic phenotypic traits, such as genome size 25 – 27 showing that species with large genomes may be at a selective disadvantage in extreme or unstable environmental conditions.…”

Section: Introductionmentioning

confidence: 99%

Unscrambling phylogenetic effects and ecological determinants of chromosome number in major angiosperm clades

Carta

Bedini

Peruzzi

2018

Sci Rep

Self Cite

View full text Add to dashboard Cite

As variations in the chromosome number are recognized to be of evolutionary interest but are also widely debated in the literature, we aimed to quantitatively test for possible relationships among the chromosome number, plant traits, and environmental factors. In particular, the chromosome number and drivers of its variation were examined in 801 Italian endemic vascular plants, for a total of 1364 accessions. We estimated phylogenetic inertia and adaptation in chromosome number - based on an Ornstein-Uhlenbeck process - and related chromosome numbers with other plant traits and environmental variables. Phylogenetic effects in chromosome number varied among the examined clades but were generally high. Chromosome numbers were poorly related to large scale climatic conditions, while a stronger relationship with categorical variables was found. Specifically, open, disturbed, drought-prone habitats selected for low chromosome numbers, while perennial herbs, living in shaded, stable environments were associated with high chromosome numbers. Altogether, our findings support an evolutionary role of chromosome number variation, and we argue that environmental stability favours higher recombination rates in comparison to unstable environments. In addition, by comparing the results of models testing for the evolvability of 2n and of x, we provide insight into the presumptive ecological significance of polyploidy.

show abstract

“…Since the chromosome number is the most basic karyotype feature and it can be observed by conventional staining of meristem cells or pollen mother cells, most cytogenetic databases deal only with this attribute ( Peruzzi and Bedini 2014 ; Rice et al 2015 ). Estimates of genome size, which are currently addressed mostly by comparing the relative fluorescence of propidium iodide stained nuclei measured in a flow cytometer to that of known patterns, are compiled in the Kew C-value database ( Doležel and Greilhuber 2010 ; Garcia et al 2014a ).…”

Section: Introductionmentioning

confidence: 99%

The Cerrado (Brazil) plant cytogenetics database

Roa¹,

Telles²

2017

CCG

View full text Add to dashboard Cite

Cerrado is a biodiversity hotspot that has lost ca. 50% of its original vegetation cover and hosts ca. 11,000 species belonging to 1,423 genera of phanerogams. For a fraction of those species some cytogenetic characteristics like chromosome numbers and C-value were available in databases, while other valuable information such as karyotype formula and banding patterns are missing. In order to integrate and share all cytogenetic information published for Cerrado species, including frequency of cytogenetic attributes and scientometrics aspects, Cerrado plant species were searched in bibliographic sources, including the 50 richest genera (with more than 45 taxa) and 273 genera with only one species in Cerrado. Determination of frequencies and the database website (http://cyto.shinyapps.io/cerrado) were developed in R. Studies were pooled by employed technique and decade, showing a rise in non-conventional cytogenetics since 2000. However, C-value estimation, heterochromatin staining and molecular cytogenetics are still not common for any family. For the richest and best sampled families, the following modal 2n counts were observed: Oxalidaceae 2n = 12, Lythraceae 2n = 30, Sapindaceae 2n = 24, Solanaceae 2n = 24, Cyperaceae 2n = 10, Poaceae 2n = 20, Asteraceae 2n = 18 and Fabaceae 2n = 26. Chromosome number information is available for only 16.1% of species, while there are genome size data for only 1.25%, being lower than the global percentages. In general, genome sizes were small, ranging from 2C = ca. 1.5 to ca. 3.5 pg. Intra-specific 2n number variation and higher 2n counts were mainly related to polyploidy, which relates to the prevalence of even haploid numbers above the mode of 2n in most major plant clades. Several orphan genera with almost no cytogenetic studies for Cerrado were identified. This effort represents a complete diagnosis for cytogenetic attributes of plants of Cerrado.

show abstract

Online resources for chromosome number databases

Abstract: Available online resources for animal and plant chromosome number databases are surveyed and briefly discussed.

Cited by 17 publications

References 33 publications

Introducing the Bird Chromosome Database: An Overview of Cytogenetic Studies in Birds

Introducing the Bird Chromosome Database: An Overview of Cytogenetic Studies in Birds

Unscrambling phylogenetic effects and ecological determinants of chromosome number in major angiosperm clades

The Cerrado (Brazil) plant cytogenetics database

Contact Info

Product

Resources

About