Marine genomics: News and views

Ribeiro, Ângela Maria; Foote, Andrew; Kupczok, Anne; Frazão, Bárbara; Limborg, Morten T.; Piñeiro, Rosalía; Abalde, Samuel; Rocha, Sara; Fonseca, Rute R. da

doi:10.1016/j.margen.2016.09.002

Cited by 12 publications

(4 citation statements)

References 117 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In the Mediterranean, P. oceanica plays a crucial role for the ecosystem productivity through favoring biodiversity, revealing a whole range of intra-specific levels of diversity from complete clonality to high variability (Ribeiro et al 2016). In this littoral zone of the northern coast of Lazio, natural drivers like the prevailing current direction towards north (Bonamano et al 2015; could affect seed transport favoring the colonization of new habitats whilst the incidence of multiple environmental impacts and the intra-meadow genotypic heterogeneity drive the plant to a more plastic response among individuals (Micheli et al 2015;.…”

Section: Resultsmentioning

confidence: 99%

Assessment of the ecological structure of Posidonia oceanica (L.) Delile on the northern coast of Lazio, Italy (central Tyrrhenian, Mediterranean)

Gnisci¹,

Martiis²,

Belmonte³

et al. 2020

View full text Add to dashboard Cite

The ecological structure of Posidonia oceanica (L.) Delile meadows was evaluated on the northern coast of Lazio, Italy (central Tyrrhenian, Mediterranean sea). This is an infra-littoral zone with a wide range of anthropogenic activities and high geo-morphological variability, which reflects heterogeneity in shoot density, leaf morphology and biomass in fragmented patches. Genetic variability in populations corresponds to the formation of 3 sub-clusters, in the diverse impacted zones (north, centre and south), being correlated to the geographical distance between sites. AMOVA estimated a high genetic variation showing 43.05% individual differences within populations with a marked differentiation among the populations (56.9%) indicated by Fst value (0.57). These results revealed the role of the genetic structure of seagrasses for determining selectivity of fragmented habitat, in response to natural drivers. They showed that site-specific self-recruitment is related to biodiversity capacity and to the geo-morphological characteristic of the coast.

show abstract

Section: Resultsmentioning

confidence: 99%

Assessment of the ecological structure of Posidonia oceanica (L.) Delile on the northern coast of Lazio, Italy (central Tyrrhenian, Mediterranean)

Gnisci¹,

Martiis²,

Belmonte³

et al. 2020

View full text Add to dashboard Cite

show abstract

“…Given the advances in sequencing technologies, protocols based on next generation sequencing (NGS) provide thousands of genetic markers that can now be used to study shark population structures, enabling high‐resolution inferences (Junge et al, 2019; Manuzzi, Zane, Muñoz‐Merida, Griffiths, & Veríssimo, 2019; Misano Delser et al, 2016; Pazmiño, Maes, Simpfendorfer, Salinas‐de‐León, & van Herwerden, 2017; Portnoy et al, 2015). These high‐throughput tools have also improved the ability to answer a wide variety of questions related to evolutionary processes such as endothermy (Marra et al, 2017), biodiversity, and impacts of fishing (Ribeiro et al, 2017). Therefore, understanding the role of evolutionary forces which lead to the current patterns of genetic divergence among populations requires the use of a representative amount and variety of molecular markers.…”

Section: Introductionmentioning

confidence: 99%

Population genetic divergence of bonnethead sharks Sphyrna tiburo in the western North Atlantic: Implications for conservation

Díaz‐Jaimes¹,

Bayona‐Vásquez

Escatel‐Luna

et al. 2020

Aquatic Conservation

View full text Add to dashboard Cite

Sharks are a priority for conservation because numerous species, including small‐sized coastal species, are being heavily exploited by commercial and recreational fisheries. Understanding the genetic population structure of sharks is key to effective management, maximizing their evolutionary potential in a rapidly changing environment and preventing population declines. Limited dispersal is an important factor promoting population divergence for several coastal shark species. The genetic variation in 14 microsatellite loci and 21,006 single nucleotide polymorphisms genotyped using restriction‐site‐associated DNA sequencing was analysed to assess the genetic structure of the bonnethead shark, Sphyrna tiburo, in the western North Atlantic. Genetic differences were identified among three well‐defined regions: the western Florida coast, the south‐eastern US Atlantic coast, and the southern Gulf of Mexico. Results support previous studies based on mitochondrial DNA sequences in defining differences among these regions and suggest limitations of bonnethead sharks in routinely performing long‐distance migrations. The limited connectivity among regions explains the pattern of genetic divergence but also reported divergence at the species/subspecies level. These genetically discrete bonnethead populations have independent evolutionary histories that may include local adaptations to specific areas. Bonnethead sharks are currently managed as two stocks in the USA owing to recent genetic, tagging, and life history studies; however, no stock assessments or management plans exist for Mexico. These results not only serve to reinforce US management strategies and provide critical data about the extent of gene flow and sex dispersal among populations, but also begin the process of effective management in the waters of Mexico to ensure the long‐term productivity and resilience of this species. With an absence of gene flow between populations from US waters and the southern Gulf of Mexico, there is a need for management plans based upon independent biological and population dynamics data since limited or no opportunities for populations to interchange individuals may occur to re‐establish population viability.

show abstract

“…Very few algal genome reference sequences are currently available for the analyses of nitrogen uptake and there has been little investigation of environmentally-relevant species' genomes (Table 1) (Kim et al 2014). Furthermore, the strategy in terms of transformation and metabolic engineering has previously been underdeveloped for the improvement of algal yield (Ribeiro et al 2016). D. salina CCAP19/18 organellar DNA sequences along with the forthcoming nuclear genome sequence, have recently become (or will be soon) available and represent a key resource for applying omics tools in understanding genomic adaptations in the species (Smith et al 2010;Del Vasto et al 2015).…”

Section: Problem Statementmentioning

confidence: 99%

“…Furthermore, the strategy in terms of transformation and metabolic engineering has previously been underdeveloped for the improvement of algal yield (Ribeiro et al . 2016). D. salina CCAP19/18 organellar DNA sequences along with the forthcoming nuclear genome sequence, have recently become (or will be soon) available and represent a key resource for applying omics tools in understanding genomic adaptations in the species (Smith et al .…”

Section: Problem Statementmentioning

confidence: 99%

Exploiting microalgal competition ability to acquire nitrogen and light

Liu

Xia

Qiao

2020

Phycological Research

View full text Add to dashboard Cite

Microalgae are ideal phototrophs for many commercial products. Our previous research has leveraged biodiversity concepts to evaluate the effects of competition on dynamics and coexistence of different microalgal species. The originality of the review lies in the envisioning of these state‐of‐the‐art techniques to study a novel issue of how algal species modulate the whole‐cell metabolism and gene expression to yield biomass beyond current limits. Competition is crucial in driving the activity, structure and composition of algal communities which are of central importance to aquatic environment productivity. However, fundamental gaps remain in understanding how algal species compete for light and nitrogen by regulating whole‐cell metabolisms. Moreover, it is unclear how this competitive potential is modulated in algal populations to achieve high biomass production. Despite the principles and applications of competition having been tested theoretically and empirically in many studies, there is still considerable debate and paradoxical observations regarding the key mechanisms that underlie competition for limited nutrients. One reason for the uncertainty is the difficulty in making direct comparisons between species with differing functional traits. Moreover, the lack of available reference genomes for many algal species presents a further hindrance in understanding competitive trait dynamics. The review seeks to improve our understanding of these fundamental problems, which have direct implications in aiding the production of renewable fuels and chemicals via photosynthetic biology. The review also envisions a whole set of omics analysis in the future that would shed light on the poorly defined functions of competition in microalgae.

show abstract

Marine genomics: News and views

Cited by 12 publications

References 117 publications

Assessment of the ecological structure of Posidonia oceanica (L.) Delile on the northern coast of Lazio, Italy (central Tyrrhenian, Mediterranean)

Assessment of the ecological structure of Posidonia oceanica (L.) Delile on the northern coast of Lazio, Italy (central Tyrrhenian, Mediterranean)

Population genetic divergence of bonnethead sharks Sphyrna tiburo in the western North Atlantic: Implications for conservation

Exploiting microalgal competition ability to acquire nitrogen and light

Contact Info

Product

Resources

About