Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Genomics02:02

Genomics

39.9K
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...
39.9K
Genomic DNA in Prokaryotes00:46

Genomic DNA in Prokaryotes

48.4K
The genome of most prokaryotic organisms consists of double-stranded DNA organized into one circular chromosome in a region of cytoplasm called the nucleoid. The chromosome is tightly wound, or supercoiled, for efficient storage. Prokaryotes also contain other circular pieces of DNA called plasmids. These plasmids are smaller than the chromosome and often carry genes that confer adaptive functions, such as antibiotic resistance.
Genomic Diversity in Bacteria
Although bacterial genomes are much...
48.4K
Genomic DNA in Eukaryotes00:58

Genomic DNA in Eukaryotes

52.7K
Eukaryotes have large genomes compared to prokaryotes. To fit their genomes into a cell, eukaryotic DNA is packaged extraordinarily tightly inside the nucleus. To achieve this, DNA is tightly wound around proteins called histones, which are packaged into nucleosomes that are joined by linker DNA and coil into chromatin fibers. Additional fibrous proteins further compact the chromatin, which is recognizable as chromosomes during certain phases of cell division.
52.7K
Genomic Imprinting and Inheritance02:30

Genomic Imprinting and Inheritance

36.9K
Diploid organisms inherit genetic material through chromosomes from both parents. Copies of the same gene are known as alleles. In most cases, both alleles are simultaneously expressed and allow various cellular processes to function optimally. If one of the alleles is missing or mutated, the expression of the other allele can compensate; however, this is not true for all genes.
The expression of some genes depends on which parent passed the gene to the offspring, through a phenomenon known as...
36.9K
Genome Size and the Evolution of New Genes03:21

Genome Size and the Evolution of New Genes

9.1K
While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
9.1K
Cis-regulatory Sequences02:02

Cis-regulatory Sequences

11.6K
Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
11.6K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Short-Read Sequencing Benchmarking with Donor-Specific Assemblies.

bioRxiv : the preprint server for biology·2026
Same author

Publisher Correction: Interplay between cohesin and RNA polymerase II in regulating chromatin interactions and gene transcription.

Nature structural & molecular biology·2026
Same author

Building an Interoperable Rare Disease Multi-omic Resource: The GREGoR Data Model and Dataset.

bioRxiv : the preprint server for biology·2026
Same author

Long-read MitoScope reveals tissue-resolved somatic mitochondrial variation and landscape of nuclear-embedded mitochondrial sequences.

bioRxiv : the preprint server for biology·2026
Same author

Donor-specific assemblies enhance somatic structural variant detection in complex genomic regions.

bioRxiv : the preprint server for biology·2026
Same author

Interplay between cohesin and RNA polymerase II in regulating chromatin interactions and gene transcription.

Nature structural & molecular biology·2026

Related Experiment Video

Updated: Jan 27, 2026

Ultra-long Read Sequencing for Whole Genomic DNA Analysis
10:34

Ultra-long Read Sequencing for Whole Genomic DNA Analysis

Published on: March 15, 2019

23.9K

Ultra-long Read Sequencing for Whole Genomic DNA Analysis.

Liang Gong1, Chee-Hong Wong1, Jennifer Idol1

  • 1Genome Technologies, Jackson Laboratory for Genomic Medicine.

Journal of Visualized Experiments : Jove
|April 2, 2019
PubMed
Summary

This study details a protocol for ultra-long DNA sequencing using nanopore technology, achieving longer reads for complex genome analysis. The method optimizes DNA extraction and library preparation for improved sequencing efficiency and read length.

More Related Videos

Purification of High Molecular Weight Genomic DNA from Powdery Mildew for Long-Read Sequencing
06:56

Purification of High Molecular Weight Genomic DNA from Powdery Mildew for Long-Read Sequencing

Published on: March 31, 2017

12.2K
Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

5.8K

Related Experiment Videos

Last Updated: Jan 27, 2026

Ultra-long Read Sequencing for Whole Genomic DNA Analysis
10:34

Ultra-long Read Sequencing for Whole Genomic DNA Analysis

Published on: March 15, 2019

23.9K
Purification of High Molecular Weight Genomic DNA from Powdery Mildew for Long-Read Sequencing
06:56

Purification of High Molecular Weight Genomic DNA from Powdery Mildew for Long-Read Sequencing

Published on: March 31, 2017

12.2K
Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

5.8K

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Third-generation single-molecule sequencing, like Nanopore, offers long reads crucial for complex genome assembly and structural variant analysis.
  • Nanopore platforms provide long sequencing reads (hundreds of kilobases) cost-effectively by measuring electrical current changes as DNA passes through a pore.
  • Maximizing read length is key to unlocking the full potential of Nanopore sequencing.

Purpose of the Study:

  • To provide a detailed protocol for generating ultra-long DNA sequencing reads.
  • To optimize DNA extraction and library preparation methods to minimize DNA breakage and maximize template efficiency.
  • To enable advanced genomic applications such as whole genome sequencing and structural variant detection.

Main Methods:

  • High molecular weight (HMW) DNA extraction from fresh or frozen mammalian cells.
  • Library construction using either mechanical shearing or transposase-mediated fragmentation.
  • Sequencing on a Nanopore device to generate ultra-long reads.

Main Results:

  • The protocol achieves an N50 read length of 50-70 kb using mechanical shearing.
  • Transposase-mediated fragmentation yields a higher N50 read length of 90-100 kb.
  • The method is effective for whole genome sequencing of mammalian cells.

Conclusions:

  • The developed protocol successfully generates ultra-long DNA sequencing reads using Nanopore technology.
  • Transposase fragmentation offers superior read lengths compared to mechanical shearing for Nanopore sequencing.
  • Further optimization of DNA extraction and enzymatic reactions can enhance read length and broaden application scope.