rbcL gene in global molecular data repository

Omonhinmin, Conrad A.; Onuselogu, Chinedu Charles

doi:10.1016/j.dib.2022.108090

Cited by 3 publications

(2 citation statements)

References 5 publications

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“…To estimate the database coverage of NIS in European waters, we cross-referenced species listed in the AquaNIS and EASIN databases with species in the sequence databases Midori v253 (Leray et al, 2022), PR2 v5.0.0 (Guillou et al, 2013), SILVA 138 SSURef and LSURef NR (Quast et al, 2013), MitoFish v2023-03-23 (Iwasaki et al, 2013), MetaZooGene (downloaded April 4, 2023Bucklin et al, 2021), and a list of all rbcL gene entries from global data repositories (Omonhinmin and Onuselogu, 2022). Out of 2,197 NIS in European waters, sequence data for at least one taxonomic marker were available for 1,318 species (60%; see Table 5).…”

Section: Convention For the Protection Of The Marine Environment Of T...mentioning

confidence: 99%

Marine invasive alien species in Europe: 9 years after the IAS Regulation

Katsanevakis,

Olenin,

Puntila-Dodd

et al. 2023

Front. Mar. Sci.

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Biological invasions, resulting from human activities, exert substantial impacts on ecosystems worldwide. This review focuses on marine invasive alien species (IAS) in Europe, examining the current state, proposing strategies to address the problem, and offering recommendations for enhanced management. Effective management of biological invasions relies on accessible, accurate data to inform decision-making. Information systems such as the European Alien Species Information Network (EASIN), Aquatic Non-Indigenous and Cryptogenic Species (AquaNIS), and World Register of Introduced Marine Species (WriMS) provide comprehensive databases on IAS, but their sustainability requires long-term maintenance, continuous updates, and support. Most countries lack specific monitoring programs for marine IAS, and standardization and improvement of monitoring methods are needed. Port monitoring plays a vital role in the early detection of new arrivals, and recent advancements in molecular techniques show promise for effective IAS monitoring. Risk screening tools are commonly employed to rank taxa based on their invasiveness potential in European regions, but variations in protocols can yield inconsistent results. European impact assessments highlight resource competition, novel habitat creation, and predation as primary mechanisms for negative impacts on biodiversity, while the creation of novel habitats represents a key mechanism for positive impacts. Preventing IAS introductions is critical, and measures such as ballast water treatment systems are implemented to reduce the likelihood of marine introductions. However, understanding introduction pathways remains uncertain for many IAS. Eradication and control efforts for marine IAS have limited success, emphasizing the need for enhanced biosecurity measures. Climate change, especially ocean warming, can intensify IAS impacts on native species and ecosystems. In climate change hotspots, some tropical aliens may, however, compensate for the loss of thermally sensitive natives with similar traits. Therefore, it is imperative to consider the interactions between climate change and IAS in developing effective management and conservation strategies. Enhancing IAS management in Europe entails i) securing adequate funding, ii) expanding the list of IAS of Union Concern to adequately cover marine invasions, iii) learning from countries with successful biosecurity practices, iv) sustaining information systems, v) improving monitoring and early warning systems with innovative technologies, vi) enhancing prediction models, vii) conducting integrated impact assessments and mapping cumulative IAS impacts, and vii) considering the potential benefits of IAS in ecosystem functioning and services.

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Section: Convention For the Protection Of The Marine Environment Of T...mentioning

confidence: 99%

Marine invasive alien species in Europe: 9 years after the IAS Regulation

Katsanevakis,

Olenin,

Puntila-Dodd

et al. 2023

Front. Mar. Sci.

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“…Gao et al (2022) have done a comparative analysis of whole chloroplast genomes of Echinochloa sp. Omonhinmin and Onuselogu (2022), in their article have emphasized the importance of Ribulose-1,5bisphosphate carboxylase/oxygenase large subunit rbcL gene as global molecular data repositor, which can help in finding relatedness of plants and study evolutionary relationships.…”

Section: Introductionmentioning

confidence: 99%

Biochemical Analysis and DNA Barcoding of Millet Echinochloa frumentacea

Panigrahy,

More,

Prashant

et al. 2023

BKAP

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Background: Millets are small grains that are rich in nutrients. In recent times, millet-based foods have been increasingly recommended for a healthy diet. Many millets are not annotated or DNA barcoded yet. Methods: In this study, comparative biochemical analyses especially that of starch and total protein of Echinochloa frumentacea, called as Indian barnyard white millet (Varai), from geographically different locations like Tamil Nadu and Maharashtra have been done. Their DNA barcoding has also been done to identify them on the basis of molecular data. Result: It was observed that starch granules were more abundant in Tamil Nadu variety as compared to Maharashtra variety. Blue value, indicative of amylose: amylopectin ratio was found to be low in Varai, indicating that Varai has low starch digestibility and its starch releases glucose slowly, thus making it a low glycaemic index food. Protein content was higher in Tamil Nadu variety, but overall Varai had a lower protein content as compared to other millets. Ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) gene from plastid was isolated, amplified by PCR, sequenced and the sequence was submitted to GenBank, NCBI. The gene was identified to be that of Echinochloa frumentacea and was given the accession numbers by GenBank as OR027010 (Varai, Maharashtra) and OR027011 (Varai, Tamil Nadu). This study indicated a distinct biochemical difference related to the geographical location of millets. This study helped barcoding of Echinochloa frumentacea Indian varieties using rbcL gene. This will further help in studies of phylogeny and evolution and also that of the relatedness of Echinochloa sp within and as compared to other millets.

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