From Fins to Genes: DNA Barcoding Unlocks Marine Diversity Along Mozambique’s Coast

DNA Barcding unlocks marine diversity along Mozambique's coast

The Mozambique Channel, which is located between the Madagascar and Mozambique on the African coast, is an important hot spot for biodiversity because its many coastal ecosystems provide a range of habitats that support diverse plant and animal species. Understanding the biodiversity of an ecosystem, particularly biodiversity hot spots, is important for many reasons. For marine systems, accurate classification and reporting of fish species supports fisheries research, natural resource surveys, forensic studies, conservation studies, and enables discovery of new or under-reported species. Studies have been limited along the west coast of Africa and are only now in their early stages.

A 2024 research study by Muhala and colleagues applied DNA barcoding to evaluate the composition of marine and coastal fish diversity from the Mozambican coast. In the study, the Wizard® Genomic DNA Purification Kit was used to extract DNA from both teleost (ray-finned) and elasmobranch (sharks, rays and skates) fish classes, with a total of 143 species sampled from local artisanal fisheries along the Mozambican coast. The samples were primarily composed of muscle or fin tissues, which are ideal for genetic analysis due to their higher DNA yield. These tissue samples were collected from various fish species captured along the coast of Mozambique, stored in ethanol (96%) to preserve DNA integrity, and then processed using the Wizard kit. Total genomic DNA was extracted from the muscle or fin tissues, as per the manufacturer’s protocol. This method ensures the isolation of high-quality genomic DNA, which is crucial for subsequent polymerase chain reaction (PCR) amplification and sequencing. The COI gene (cytochrome c oxidase subunit I) was targeted for DNA barcoding, enabling species identification and assessment of genetic diversity.

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Our Top Three Most-Viewed Blog Posts of 2022

In 2022, our bloggers wrote on topics ranging from monkeypox outbreaks to cultured meat in biotech labs to preventing the next pandemic. Our top three most-viewed blog posts this year have the commonality of Promega products helping to advance important research in different fields and push science a step forward in the world. Take a look at Promega’s top three most-viewed blog posts of 2022.

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Improved FFPE Tissue Sample Processing with High-Throughput Automated DNA Extraction

In oncology, tissue biopsies are commonly fixed in formalin and embedded in paraffin (FFPE). These FFPE samples can be used with immunohistochemical or molecular analysis for identifying biomarkers that guide the diagnosis and therapeutic management of patients. This fixation technique allows long-term storage of samples but impacts the integrity of nucleic acids. This makes extracting DNA and RNA from FFPE tissues in sufficient quantity and quality for molecular analysis techniques such as NGS analyses challenging for molecular oncology laboratories.

“At Rennes University Hospital, we receive many lung cancer samples with little material available, or samples of poor quality. The nucleic acid extraction step is therefore critical to get good yield. We have seen that it had a direct impact on the success of downstream analysis,” said Dr. Alexandra Lespagnol. Lespagnol is the Technical Manager of the Molecular Genetics of Cancer core lab at the University Hospital of Rennes in France.

In order to accommodate the increasing number of samples that needed to be analyzed, the Molecular Genetics of Cancer core lab of the University Hospital of Rennes initiated an automation project for extracting DNA from FFPE tissues. The lab also wanted to improve sample tracking and reproducibility of their results.

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Finding the Right Maxwell® RSC Kit for Your Nucleic Acid Extraction

This blog was written by guest writers Paraj Mandrekar (Technical Services Scientist 3) and Michelle Mandrekar, (Research Scientist 4).

Here are some designer’s notes comparing the Maxwell® RSC Blood DNA and the Maxwell® RSC simplyRNA kit chemistries for nucleic acid extraction.

The Maxwell RSC Blood DNA Kit and Maxwell RSC simplyRNA Blood Kit were both developed from the same non-silica-based purification chemistry and use the same underlying paramagnetic particle. This chemistry is characterized by an extreme binding capacity (the capacity of nucleic acid that can be bound on the particle), leading to both chemistries being capable of isolating large amounts of nucleic acid volumes and then eluting into relatively small volumes (50 µL). It is not unusual with either chemistry to have isolates that exceed 100 ng/µL. Although the chemistries have several similarities, there are some important distinctions between how the two chemistries were designed that influence which kit you choose for your nucleic acid extraction.

Image of blood with molecules of DNA and RNA superimposed Nucleic Acid Extraction
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How Do You Solve a Problem Like Malaria?

malaria_researcher
Photo courtesy of NIH/NIAID

Malaria affects nearly half of the world’s population, with almost 80% of cases in sub-Saharan Africa and India. While there have been many strides in education and prevention campaigns over the last 30 years, there were over 200 million cases documented in 2017 with over 400,000 deaths, and the majority were young children. Despite being preventable and treatable, malaria continues to thrive in areas that are high risk for transmission. Recently, clinicians started rolling out use of the first approved vaccine, though clinical trials showed it is only about 30% effective. Meanwhile, researchers must continue to focus on innovative efforts to improve diagnostics, treatment and prevention to reduce the burden in these areas.

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Weird samples? Contact Tech Serv to find the right DNA purification kit for you.

“Dear Tech Serv,
We would like to detect DNA collected from swabs rubbed on the inside thighs of frogs. What would be the best DNA extraction kit to use for this?”

“Hi Tech Serv,
I need to find out a suitable kit for extracting DNA from bird fecal samples. Can I use ReliaPrep™ gDNA Tissue Miniprep System for that?”

These are just some examples of unconventional sample type inquiries that the Promega Technical Services Team receives regularly from scientists around the world. Many of these inquiries land in the hands of Technical Services Scientist, Paraj Mandrekar (a.k.a. “sample type guru”).

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