Related Experiment Video
Updated: Jan 28, 2026
16:02
Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation
Published on: February 10, 2023
3.2K
Microsatellite Borders and Micro-sequence Conservation in Juglans
Aziz Ebrahimi1, Samarth Mathur2, Shaneka S Lawson3
1Department of Forestry and Natural Resources, Hardwood Tree Improvement and Regeneration Center, Purdue University, 715 State Street, West Lafayette, IN, 47907, USA. aebrahi@purdue.edu.
Scientific Reports
|March 8, 2019
Summary
This study identified simple sequence repeats (SSRs) in 12 walnut genomes, providing valuable genetic markers. These SSRs will aid in walnut breeding, taxonomy, and genomic research.
Area of Science:
- Genomics
- Plant Genetics
Background:
- Walnuts (Juglans spp.) are significant nut and timber species globally.
- Limited information exists on genome-wide simple sequence repeats (SSRs) in most Juglans species.
Purpose of the Study:
- To identify and characterize nuclear and organellar SSRs across multiple Juglans species.
- To develop and validate SSR primer pairs for genetic analysis and breeding.
Main Methods:
- Utilized the Persian walnut genome as a reference for assembling short reads from six Juglans species and hybrids.
- Identified SSR motifs, compared their frequencies and lengths, and designed primer pairs.
- Validated over 39,000 SSR loci using e-PCR.
Main Results:
- Identified SSRs in 12 Juglans nuclear and organellar genomes, with previously unstudied genome-wide distributions.
- Discovered section-specific chloroplast SSR motifs.
- Generated over 60,000 SSR-containing sequences with validated primer pairs, showing high sequence identity in flanking regions within species.
Conclusions:
- This comprehensive SSR analysis provides a valuable resource for Juglans genetic studies.
- Validated SSR primers will support walnut breeding programs, taxonomic evaluations, and genomic research in Juglandaceae.
Related Concept Videos
02:51Multi-species Conserved Sequences
4.7K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
4.7K
01:49Conserved Binding Sites
5.1K
Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
5.1K
01:57What is Conservation Biology?
24.3K
Conservation biology is a scientific field that focuses on the preservation of biodiversity in order to protect ecosystems while meeting the needs of the human population. Humans require properly functioning ecosystems to maintain our supply of natural resources, including food, medicines, and building materials.
24.3K
02:04Conservation of Small Populations
17.1K
Small population sizes put a species at extreme risk of extinction due to a lack of variation, and a consequent decrease in adaptability. This weakens the chances of survival under pressures such as climate change, competition from other species, or new diseases. Large populations are more likely to survive pressures such as these, as such populations are more likely to harbor individuals that have genetic variants that are adaptive under new stresses. Small populations are much less...
17.1K
02:26Conservation of Protein Domains Over Different Proteins
14.4K
Protein domains are small structurally independent units that are part of a single amino acid chain. Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
14.4K
01:03Conservative Forces
953
Conservative forces are an essential concept in the field of mechanical engineering. Understanding the properties and characteristics of these forces is crucial to the design and analysis of mechanical systems.
Conservative forces are forces that are dependent only on the initial and final positions of an object and that are independent of the path that the object takes between these positions. These forces conserve energy, which means that the work done by the force is independent of the path...
Conservative forces are forces that are dependent only on the initial and final positions of an object and that are independent of the path that the object takes between these positions. These forces conserve energy, which means that the work done by the force is independent of the path...
953