Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional analysis of anole lungs at E18

ABSTRACT: This project aims to establish the embryonic anole lung as a model for investigating lung development and more general epithelial morphogenesis by generating a set of single-cell RNA-seq (scRNA-seq) data from late-stage embryonic lungs taken from brown anoles (Anolis sagrei). The anole lung, with its simple architecture, provides a novel tool for investigating signaling in a less complex respiratory system than the murine lung, and this data set would be a large advance in making this system more widely known and accesible among developmental biologists.

ORGANISM(S): Anolis sagrei

PROVIDER: GSE182814 | GEO | 2021/08/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcriptional analysis of anole lungs at E18

Project description:Transcriptional analysis of anole lungs at E18

| PRJNA757967 | ENA

Anole ocular patterns of gene expression

Project description:For the purpose of facilitating gene annotation, a transcriptome profile of the developing anole eye was used to identify coding and non-coding regions in the Anolis genome. RNA datasets were generated by collecting samples from three subregions of the anole posterior globe (central, temporal, and nasal) which was comprised of nerual retina, retinal pigmented epithelium, choriod, and scleral tissues. A total of five sample replicates were made. Each replicate incorporated pooled tissues collected from three stage 16.5 developing anole embryos.

2022-06-21 | GSE184570 | GEO

The transcriptome of embryos of the green anole, Anolis carolinensis, at 28 and 38 somite pair stages

Project description:Anolis carolinensis embryos were collected 0-1 days post egg laying, and total RNA was extracted for RNA-Seq analysis (Illumina Hi-Seq2000). Transcriptome sequence from these stages in the green anole, equivalent to mouse 9.5-10.5 dpc embryos, will help to improve gene annotations in A. carolinensis and provide expression level information for key organogenesis and patterning processes. Anolis carolinensis embryos were collected 0-1 days post egg laying for RNA-Seq analysis. The two embryos collected were at 28 somite-pair (28S) and 38 somite-pair (38S), equivalent to mouse 9.5 dpc and 10.5 dpc embryos, respectively. Total RNA was extracted using the total RNA component of the mirVana (Ambion) kit, RNA-Seq library prep was carried out using the NuGEN Ovation RNA-Seq kit, and sequencing was carried out on an Illumina HiSeq 2000, following the manufacturer's protocol. The untrimmed data was then aligned to the Anolis carolinensis reference genome (Anocar2.0) using tophat. Published: Eckalbar WL, Lasku E, Infante CR, Elsey RM, Markov GJ, Allen AN, Corneveaux JJ, Losos JB, DeNardo DF, Huentelman MJ, Wilson-Rawls J, Rawls A, Kusumi K. Somitogenesis in the anole lizard and alligator reveals evolutionary convergence and divergence in the amniote segmentation clock. Dev Biol. DOI: 10.1016/j.ydbio.2011.11.021

2011-12-14 | E-GEOD-34415 | biostudies-arrayexpress

Identifying active cis-regulatory elements during the development of the limbs and external genitalia in the mouse and lizard.

Project description:The morphologies of the amniote phallus and limbs differ dramatically, but these structures share signaling pathways and patterns of gene expression in early development. Thus far, the extent to which genital and limb transcriptional networks share cis-regulatory elements has remained unexplored. Using chromatin immunoprecipitation with an antibody against the histone modification mark H3K27ac followed by Illumina high-throughput sequencing, we identify thousands of active enhancers in developing limbs, genital tubercle, and additional embryonic tissues of the mouse and green anole lizard (Anolis carolinensis). We show in global analyses of cis-regulatory activity that embryonic limbs and genitalia display overlapping patterns of enhancer activity, and that many H3K27ac-marked regions are shared between mouse and green anole. Our findings support the hypothesis that the amniote phallus evolved through co-option of a preexisting appendage developmental program.

2015-10-01 | GSE64055 | GEO

BioProject PRJNA381064: Convergent origination of a Drosophila-like dosage compensation mechanism in a reptile lineage (Gene expression profiling in several tetrapod species, bulk tissue RNA-seq)

Project description:In order to study the green anole dosage compensation mechanism we generated strand-specific RNA-seq libraries for a total of 186 samples from the green anole and other representative amniotes (human, mouse, opossum, platypus, chicken and xenopus). Moreover, in order to understand the dosage compensation mechanism of A. carolinensis, we generated ChIP-Seq data for the histone modification H4K16ac and compared levels of acetylation between males and females. Moreover, we reconstructed 7 Y-linked transcripts of Anolis carolinensis based on a male/female subtraction approach and validate these Y sequences using re-sequenced genomes.

2017-10-27 | GSE97367 | GEO

The transcriptome of embryos of the green anole, Anolis carolinensis, at 28 and 38 somite pair stages

2011-12-14 | GSE34415 | GEO

Identification of Hedgehog signaling responsive genes in A. sagrei and M. musculus via transcriptional profiling

Project description:The brown anole lizard, Anolis sagrei, is an emerging squamate model for developmental and functional genetic studies. To develop additional tools and resources for mechanistic studies of signaling pathways and cellular processes in A. sagrei, we established an in vitro system. Using this approach, we studied Hedgehog (Hh) signaling, one of the key developmental signaling pathways, which has evolved across the metazoa. We investigated Hh pathway-induced transcriptional changes in two evolutionarily distinct tetrapods: A. sagrei, and M. musculus, to identify the species-specific and evolutionarily shared responses. We report that ~45 % of genes induced as a response to Hh pathway activation in A. sagrei, are shared with M. musculus. To further increase the versatility of A. sagrei as a squamate model system for gene editing and genomic studies, we established and characterized a new immortalized A. sagrei embryonic fibroblast cell line ASEC-1. We performed whole-genome sequencing analysis to annotate the set of polymorphisms within this cell line. We conclude that transcriptome characterization of the ASEC-1 cell line would permit further investigations dissecting the complex biological and evolutionary aspects of Hh signaling.

2023-12-15 | GSE242114 | GEO

Project description:Anolis sagrei (brown anole lizard) genome, rAnoSag1

| PRJNA1086517 | ENA

A relative shift in cloacal location repositions external genitalia in amniote evolution

Project description:Comparative RNA-seq profiling of mouse and anole lizard developing limbs and external genitalia, to assess evolutionary and develomental relationships, between the two tissue types based on transcriptomic data RNA-seq profiling of embryonic limb and external genitalia tissue at different stages of development, in mouse and anole lizard, in duplicates, using Illumina HiSeq

2014-08-14 | E-GEOD-60373 | biostudies-arrayexpress

Anolis sagrei isolate:rAnoSag1

Project description:Anolis sagrei (brown anole lizard) genome, rAnoSag1, maternal haplotype

| PRJNA1080665 | ENA