Related Experiment Video
Updated: Oct 4, 2025
10:41
Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
Published on: May 9, 2017
9.3K
An overview of bioinformatics, genomics, and transcriptomics resources for bryophytes
Noe Fernandez-Pozo1,2, Fabian B Haas1, Sven B Gould3
1Plant Cell Biology, Department of Biology, University of Marburg, Marburg, Germany.
Journal of Experimental Botany
|February 11, 2022
Summary
Bryophytes are valuable models for plant research, especially functional genomics due to their haploid phase. Recent genome and transcriptome data have expanded resources for studying bryophyte diversity and evolution.
Area of Science:
- Plant Biology
- Evolutionary Biology
- Genomics
Background:
- Bryophytes serve as crucial models for plant evolution, development, symbiosis, stress responses, and gametogenesis.
- Their haploid gametophytic phase facilitates functional genomics research, including genome editing and gene knockout.
- Historically, Physcomitrium patens was the sole published bryophyte genome until recent expansions.
Purpose of the Study:
- To provide a comprehensive guide to available genome and transcriptome databases and bioinformatics tools for bryophytes.
- To highlight the growing accessibility of genomic data for diverse bryophyte species.
- To support comparative genomics and evolutionary studies within the bryophyte clade.
Main Methods:
- Review and compilation of existing bryophyte genome and transcriptome datasets.
- Identification and description of relevant bioinformatics tools and databases.
- Analysis of the biological features accessible through these new resources.
Main Results:
- Significant increase in available bryophyte genome and transcriptome datasets since 2016.
- Development of numerous annotations, databases, and bioinformatics tools for accessing this data.
- These resources cover diverse bryophyte biology, including arbuscular mycorrhiza symbiosis, sex chromosomes, and RNA editing.
Conclusions:
- The expanding genomic and transcriptomic resources greatly enhance the study of bryophyte diversity and evolution.
- These tools facilitate functional genomics and comparative analyses across the bryophyte clade.
- Researchers now have unprecedented access to data for exploring unique bryophyte biological features.
Related Concept Videos
02:02Genomics
37.8K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
37.8K
02:26Non-vascular Seedless Plants
67.4K
The diverse plant life on Earth—consisting of nearly 400,000 species—can be divided into three broad categories based on biological characteristics: nonvascular, seedless vascular, and seed plants.
67.4K
01:59Plant Breeding and Biotechnology
20.0K
Crop cultivation has a long history in human civilization, with records showing the cultivation of cereal plants beginning at around 8000 BC. This early plant breeding was developed primarily to provide a steady supply of food.
20.0K
02:24Ribosome Profiling
3.7K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
3.7K
03:36Genome Annotation and Assembly
19.5K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
19.5K
02:54Evolutionary Relationships through Genome Comparisons
6.4K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
6.4K