Metabarcoding quantifies differences in accumulation of ballast water borne biodiversity among three port systems in the United States

The Tree of Life eDNA metabarcoding reveals a similar taxonomic richness but dissimilar evolutionary lineages between seaports and marine reserves

Coastal areas host a major part of marine biodiversity but are seriously threatened by ever-increasing human pressures. Transforming natural coastlines into urban seascapes through habitat artificialization may result in loss of biodiversity and key ecosystem functions. Yet, the extent to which seaports differ from nearby natural habitats and marine reserves across the whole Tree of Life is still unknown. This study aimed to assess the level of α and β-diversity between seaports and reserves, and whether these biodiversity patterns are conserved across taxa and evolutionary lineages. For that, we used environmental DNA (eDNA) metabarcoding to survey six seaports on the French Mediterranean coast and four strictly no-take marine reserves nearby. By targeting four different groups-prokaryotes, eukaryotes, metazoans and fish-with appropriate markers, we provide a holistic view of biodiversity on contrasted habitats. In the absence of comprehensive reference databases, we used bioinformatic pipelines to gather similar sequences into molecular operational taxonomic units (MOTUs). In contrast to our expectations, we obtained no difference in MOTU richness (α-diversity) between habitats except for prokaryotes and threatened fishes with higher diversity in reserves than in seaports. However, we observed a marked dissimilarity (β-diversity) between seaports and reserves for all taxa. Surprisingly, this biodiversity signature of seaports was preserved across the Tree of Life, up to the order. This result reveals that seaports and nearby marine reserves share few taxa and evolutionary lineages along urbanized coasts and suggests major differences in terms of ecosystem functioning between both habitats.

Transoceanic ships as a source of alien dinoflagellate invasions of inland freshwater ecosystems

Ships' ballast water and sediments have long been linked to the global transport and expansion of invasive species and thus have become a hot research topic and administrative challenge in the past decades. The relevant concerns, however, have been mainly about the ocean-to-ocean invasion and sampling practices have been almost exclusively conducted onboard. We examined and compared the dinoflagellate cysts assemblages in 49 sediment samples collected from ballast tanks of international and domestic routes ships, washing basins associated with a ship-repair yard, Jiangyin Port (PS), and the nearby area of Yangtze River (YR) during 2017-2018. A total of 43 dinoflagellates were fully identified to species level by metabarcoding, single-cyst PCR-based sequencing, cyst germination and phylogenetic analyses, including 12 species never reported from waters of China, 14 HABs-causing, 9 toxic, and 10 not strictly marine species. Our metabarcoding and single-cyst sequencing also detected many OTUs and cysts of dinoflagellates that could not be fully identified, indicating ballast tank sediments being a risky repository of currently unrecognizable invasive species. Particularly important, 10 brackish and fresh water species of dinoflagellate cysts (such as Tyrannodinium edax) were detected from the transoceanic ships, indicating these species may function as alien species potentially invading the inland rivers and adjacent lakes if these ships conduct deballast and other practices in fresh waterbodies. Significantly higher numbers of reads and OTUs of dinoflagellates in the ballast tanks and washing basins than that in PS and YR indicate a risk of releasing cysts by ships and the associated ship-repair yards to the surrounding waters. Phylogenetic analyses revealed high intra-species genetic diversity for multiple cyst species from different ballast tanks. Our work provides novel insights into the risk of bio-invasion to fresh waters conveyed in ship's ballast tank sediments and washing basins of shipyards.

Environment and shipping drive environmental DNA beta-diversity among commercial ports

The spread of nonindigenous species by shipping is a large and growing global problem that harms coastal ecosystems and economies and may blur coastal biogeographical patterns. This study coupled eukaryotic environmental DNA (eDNA) metabarcoding with dissimilarity regression to test the hypothesis that ship-borne species spread homogenizes port communities. We first collected and metabarcoded water samples from ports in Europe, Asia, Australia and the Americas. We then calculated community dissimilarities between port pairs and tested for effects of environmental dissimilarity, biogeographical region and four alternative measures of ship-borne species transport risk. We predicted that higher shipping between ports would decrease community dissimilarity, that the effect of shipping would be small compared to that of environment dissimilarity and shared biogeography, and that more complex shipping risk metrics (which account for ballast water and stepping-stone spread) would perform better. Consistent with our hypotheses, community dissimilarities increased significantly with environmental dissimilarity and, to a lesser extent, decreased with ship-borne species transport risks, particularly if the ports had similar environments and stepping-stone risks were considered. Unexpectedly, we found no clear effect of shared biogeography, and that risk metrics incorporating estimates of ballast discharge did not offer more explanatory power than simpler traffic-based risks. Overall, we found that shipping homogenizes eukaryotic communities between ports in predictable ways, which could inform improvements in invasive species policy and management. We demonstrated the usefulness of eDNA metabarcoding and dissimilarity regression for disentangling the drivers of large-scale biodiversity patterns. We conclude by outlining logistical considerations and recommendations for future studies using this approach.

Bloom forming species transported by ballast water under the management of D-1 and D-2 standards-Implications for current ballast water regulations

Ballast water (BW) is a well-known transporter for introducing non-indigenous aquatic organisms. To reduce such risks associated with BW discharge, the International Maritime Organization (IMO) adopted the International Convention for the Control and Management of Ships' Ballast Water and Sediments (BWM Convention). We examined the abundance and diversity of bloom forming species in BW under the management of Regulation D-1 Ballast Water Exchange Standard and D-2 Ballast Water Performance Standard. The abundance and richness of bloom forming species were also examined in relation to ballast water age. Our findings indicate the abundance and diversity of bloom forming species were significantly lower in BW under the management of D-2 standard than that under D-1 standard. The abundance and richness represent no statistically significant correlation with BW age (p = 0.76 and p = 0.43, respectively). Some resistant species persist in ballast water. Thereby, we further provide some advice to overcome the existing challenges for the implementation of the Regulation D-2.

International shipping as a potent vector for spreading marine parasites

Aim

The global shipping fleet, the primary means of transporting goods among countries, also serves as a major dispersal mechanism for marine invasive species. To date, researchers have primarily focussed on the role of ships in transferring marine macrofauna, often overlooking transfers of associated parasites, which can have larger impacts on naïve host individuals and populations. Here, we re-examine three previously published metabarcode datasets targeting zooplankton and protists in ships' ballast water to assess the diversity of parasites across life stages arriving to three major US ports.

Location

Port of Hampton Roads in the Chesapeake Bay, Virginia; Ports of Texas City, Houston and Bayport in Galveston Bay, Texas; and Port of Valdez in Prince William Sound, Alaska.

Methods

We selected all known parasitic taxa, using sequences generated from the small subunit gene (SSU) from ribosomal RNA (rRNA) amplified from (1) zooplankton collected from plankton tows (35 and 80 μm datasets) and (2) eukaryotes collected from samples of ships' ballast water (3 μm dataset).

Results

In all three datasets, we found a broad range of parasitic taxa, including many protistan and metazoan parasites, that infect a wide range of hosts, from teleost fish to dinoflagellates. Parasite richness was highest in the 3 μm dataset and relatively uniform across arrival regions. Several parasite taxa were found in high relative abundance (based on number of sequences recovered) either in ships entering a single or across multiple regions.

Main Conclusions

The ubiquity, diversity and relative abundance of parasites detected demonstrate ships are a potent vector for spreading marine parasites across the world's oceans, potentially contributing to reported increases in outbreaks of marine diseases. Future research is urgently needed to evaluate the fate of parasites upon arrival and the efficacy of ballast water treatment systems to reduce future transfers and colonization.

Recent progress and challenges facing ballast water treatment - A review

The transoceanic movement of non-indigenous microorganisms and organic and inorganic contaminants through the transfer of ballast water of ocean-going vessels can be considered highly likely. The introduction of contaminants and non-indigenous microorganisms can cause changes in indigenous microorganisms, marine species, and biota, which can create problems for the ecology, economy, environment, and human health. This paper compiles and presents ballast water treatment system concepts, principles of inactivation mechanisms used, and the advantages and challenges of the treatment technologies. In addition, the paper aims to draw attention to the relationship between various organisms and the individual mechanism to be inactivated, including the effect of external factors (e.g., pH, salinity, turbidity) on inactivation efficiency. This review can assist in the choice of a suitable ballast water treatment system, taking into account the water conditions (e.g., pH, temperature, salinity) and indigenous species of the maritime areas where the ships intend to operate. This review also provides information describing the responses of the various organisms to different treatment techniques.

Anthropogenic Modifications to Estuaries Facilitate the Invasion of Non-Native Species

New observations of non-indigenous species (NIS) in coastal waters, such as the Gulf of Cadiz (Spain) have increased since 1980 and more or less exponentially in the last five years. Ballast water has become the most significant pathway for unintentional introductions of NIS into marine ecosystems. For example, the marine larvae of crustacean decapods that inhabit the water column could be transported in ballast water. Although elevated concentrations of metals are toxic to many marine organisms, some of them have evolved effective detoxification, or avoidance mechanisms making it possible to consider they have a superior ability to withstand exposures to these toxicants. In this text, we try to reinforce the hypothesis that anthropogenic modifications (such as chemical alterations and modified environments) benefit NIS with broad environmental tolerances. Taking these risks into account, a reinforcement of efficient Ballast Water Management Systems to respond to today’s challenging environmental conditions is discussed.