Ulva: An emerging green seaweed model for systems biology

Green seaweeds exhibit a wide range of morphologies and occupy various ecological niches, spanning from freshwater to marine and terrestrial habitats. These organisms, which predominantly belong to the class Ulvophyceae, showcase a remarkable instance of parallel evolution toward complex multicellularity and macroscopic thalli in the Viridiplantae lineage. Within the green seaweeds, several Ulva species (“sea lettuce”) are model organisms for studying carbon assimilation, interactions with bacteria, life cycle progression, and morphogenesis. Ulva species are also notorious for their fast growth and capacity to dominate nutrient-rich, anthropogenically disturbed coastal ecosystems during “green tide” blooms. From an economic perspective, Ulva has garnered increasing attention as a promising feedstock for the production of food, feed, and biobased products, also as a means of removing excess nutrients from the environment. We propose that Ulva is poised to further develop as a model in green seaweed research. In this perspective, we focus explicitly on Ulva mutabilis/compressa as a model species and highlight the molecular data and tools that are currently available or in development. We discuss several areas that will benefit from future research or where exciting new developments have been reported in other Ulva species.     

Localizing ethnic entrepreneurship: “Chinese” chips shops in Belgium, “traditional” food culture,and transnational migration in Europe

This article explores the causes, dynamics, and theoretical implications of the “localization” of ethnic entrepreneurship through “traditional” food businesses in Europe. Based on fieldwork conducted in 2014 and 2017, it analyses the emergence of “Chinese” chips shops in the Flemish province of Antwerp, Belgium. Highlighting the history of Chinese migration to Europe, it argues that a specific set of “contexts of exit” and “contexts of reception” explain this development. Important among these are Dutch language skills and long-term residence or citizenship in the Netherlands and Belgium, market saturation, and the global financial crisis of 2007–2008. The article posits that these Chinese entrepreneurs are neither “enclave entrepreneurs” nor a “middleman minority”: entering a “traditional” food sector, they must leverage on their “integration capital”. However, with this, they also become entangled in Belgian gastronationalism and gastropolitics. Finally, this “localization” also has a transnational dimension as many of these entrepreneurs re-migrated from the Netherlands.     

Sustainable harvesting of wild seaweed resources

Abstract

Macroalgae have played an important role in coastal communities for centuries. In the past, they have been harvested and gathered from shorelines around the world for traditional uses such as food, animal feed and a crude fertilizer (marine manure). Today, seaweeds are used in a multitude of applications with expanding global industries based on hydrocolloids, cosmetics and food supplements, and also as a potential biofuel source. However, of the approximately 10?000 algal species reported to exist, only a small number are commercially utilized. While representing only a small fraction of total global seaweed production, harvesting and gathering ‘wild’ seaweeds has had, and continues to have, an integral role in many coastal societies, often being intrinsically linked to the cultural identity of those coastal communities. Today, 32 countries actively harvest seaweeds from wild stocks, with over 800?000 t harvested annually from natural beds. It is vitally important that seaweeds are utilized sustainably and that natural resources are effectively managed by coastal communities with vested interests around the world. As the popularity of seaweeds increases and the use of less traditional species with novel applications comes to the fore, it is critically important to make certain that the sustainability of the resource is ensured given the increased pressures of harvesting. Issues exist regarding ownership of the resource and its over-exploitation, and the implementation of environmentally damaging harvesting techniques must be avoided. Resource scientists, managers, conservationists, governments, and other stakeholders need to be proactive in the sustainable management of these vulnerable, yet valuable, resources.     

Factors Associated with Food Intake in Passengers on LONG-HAUL FLIGHTS

To understand better how disruption to daily routines and circadian factors affect food intake, some aspects of 361 passengers' eating habits during long‐haul flights across eight time zones were investigated. Two meals were provided during each flight. Passengers stated whether or not they had eaten part or all of each meal and the reasons for this decision. They were also asked to give their responses to it (appetite beforehand, enjoyment during the meal, and satiety afterwards), and the type of meal they would prefer to have eaten, given an unrestricted choice. There were few occasions (<6%) when a meal was refused altogether, and no single reason was dominant. Subjective responses to food intake were more positive when larger meals were eaten and “appetite” rather than “no choice” was given as the reason for eating. Subjective responses were also more positive in those who thought the size of the meal offered was neither too small nor too large. When the two meals were considered separately, the first meal was well received by the passengers, and their enjoyment of it was not significantly different from “normal.” The second meal (offered soon before landing in the new time zone) was less well received, and many passengers would have preferred a smaller meal. The findings contribute to an understanding of the factors determining the decision to eat a meal and the subjective responses to the food that is eaten. They also have implications for airlines wishing to provide food that is acceptable to passengers and for those providing meals for night workers.     

Present and future needs for algae and algal products

A review of the present needs, mainly for production of phycocolloids and food condiments, is given. Supply and demand vary from balanced, in some, to disproportionate in other fields. World-wide shortage of agarophytes contrasts with huge, unexploited beds of brown seaweeds.In future, partly conflicting trends will decide the needs for algae and algal products. Growth in the human population, pollution, overexploitation of land and lack of freshwater will encourage use of seaweeds. Modern biotechnology will favour this development, but will also be a serious threat to industrial exploitation of seaweeds. Future uses of marine algae will be decisively influenced by the effort put into and the results coming out of seaweed research.     

THE BIOGEOGRAPHIC ORIGIN OF ARCTIC ENDEMIC SEAWEEDS: A THERMOGEOGRAPHIC VIEW1

The Arctic is geologically and biogeographically young, and the origin of its seaweed flora has been widely debated. The Arctic littoral biogeographic region dates from the latest Tertiary and Pleistocene. Following the opening of Bering Strait, about 3.5 mya, the “Great Trans‐Arctic Biotic Interchange” populated the Arctic with a fauna strongly dominated by species of North Pacific origin. The Thermogeographic Model (TM) demonstrates why climate and geography continued to support this pattern in the Pleistocene. Thus, Arctic and Atlantic subarctic species of seaweeds are likely to be evolutionarily “based” in the North Pacific, subarctic species are likely to be widespread in the warmer Arctic, and species of Atlantic Boreal or warmer origin are unlikely in the Arctic and Subarctic. Although Arctic seaweeds have been thought to have a greater affinity with the North Atlantic, we have reanalyzed the Arctic endemic algal flora, using the Thermogeographic Model and evolutionary trees based on molecular data, to demonstrate otherwise. There are 35 congeneric species of the six, abundant Arctic Rhodophyta that we treat in this paper; 32 of these species (91%) occur in the North Pacific, two species (6%) occur in the Boreal or warmer Atlantic Ocean, and a single species is panoceanic, but restricted to the Subarctic. Laminaria solidungula J. Agardh, a kelp Arctic “endemic” species, has 18 sister species. While only eleven (61%) occur in the North Pacific, this rapidly dispersing and evolving genus is a terminal member of a diverse family and order (Laminariales) widely accepted to have evolved in the North Pacific. Thus, both the physical/time‐based TM and the dominant biogeographic pattern of relatives of Arctic macrophytes suggest strong compliance with the evidence of zoology, geology, and paleoclimatology that the Arctic marine flora is largely of Pacific origin.     

Response to “Different measures of ‘genome-wide’ DNA methylation exhibit unique properties in placental and somatic tissues”

I found the research paper “Different measures of ‘genome-wide’ DNA methylation exhibit unique properties in placental and somatic tissues” by Price ME and colleagues in the June 2012 issue of Epigenetics to be an interesting read, but it contains errors in regards to the use of the MethylFlash Methylated DNA Quantification Kit. The text contained in the “Global DNA Methylation” paragraph under the “Methods” section of the paper claims that the kit was used by “following the manufacturer’s protocol.” I find that this is quite misleading to the reader as we have identified, based on the original electronic publication ahead of print, that the steps had not been correctly carried out.

The original text was the following: “DNA was hybridized to wells treated to have a high affinity for DNA. The wells were washed with a 5-mC-specific capture antibody followed by a detection antibody. The absorbance (or optical density) of each well was measured using a microplate spectrophotometer. Correlation of technical replicates was poor (r = 0.09, p = 0.72) using this kit.” However, the user guide of this kit clearly states that DNA is bound, not hybridized, to the strip wells and that the wells should be washed with the included Wash Buffer rather than a “5-mC-specific capture antibody.”

Therefore, it is not surprising that the result or correlation of replicates was poor and that the authors’ “results were variable” due to improper use of the kit. Based on our quality control tests and feedback from the vast amount of users of this popular kit, the variation between replicates should be less than 10% with R value > 0.9 (p < 0.01), assuming proper user performance according to the product manual.

I hope this helps to correct the misinformation presented in the paper as I feel that it is important to promote accuracy on behalf of the epigenetic research community. I also kindly encourage any users of an Epigentek product to work with our very knowledgeable technical support team should they have any difficulties.     

Nutritional criteria in machiguenga food production decisions: A linear-programming analysis

Machiguenga Indians of the Peruvian Amazon, like other low populationdensity, technologically “simple” peoples, produce ample food for a nutritious diet. Assuming that this is an intended outcome of their foodproduction strategy, to what extent is it a labor-efficient solution to the problem of producing a “balanced diet”? A linear-programming model of the “diet problem” is constructed with parameters reflecting the Machiguenga economy, and solutions are computed. These are then compared to observed Machiguenga food production; the degree of fit between model and behavior is examined and reasons for discrepancies are discussed.     

Mouse ES cells maintained in different pluripotency-promoting conditions differ in their neural differentiation propensity

Prior to differentiation, embryonic stem (ES) cells in culture are maintained in a so-called “undifferentiated” state, allowing derivation of multiple downstream cell lineages when induced in a directed manner, which in turn grants these cells their “pluripotent” state. The current work is based on a simple observation that the initial culture condition for maintaining mouse ES cells in an “undifferentiated” state does impact on the differentiation propensity of these cells, in this case to a neuronal fate. We point out the importance in judging the “pluripotency” of a given stem cell culture, as this clearly demonstrated that the “undifferentiated” state of these cells is not necessarily a “pluripotent” state, even for a widely used mouse ES cell line. We partly attribute this difference in the initial value of ES cells to the naïve-to-primed status of pluripotency, which in turn may affect early events of the differentiation in vitro.     

The carrageenan controversy

Except for Japanese nori, the production of seaweed hydrocolloids consumes the largest amount of macroalgae annually, and carrageenan is the largest consumer of this group. However, carrageenan has run into rough water with food processors and consumers, especially those who read ingredient labels. Carrageenan is being singled out on the Internet as being unsafe for human consumption, even though it is approved for food use by all major food regulatory agencies worldwide. Most recently, it has been approved for use in liquid infant formula, a particularly sensitive application when it comes to food safety. How did this negative attitude toward carrageenan evolve? It can be traced to a research group at the University of Illinois who claim that carrageenan upregulates inflammatory genes of the intestinal epithelium. There is no evidence that this in vitro model applies in vivo and a growing body of research is showing it does not. Nevertheless, it was picked up by various bloggers feeding on contradictory issues and quickly went viral. This paper describes the evolution of the “carrageenan controversy” and provides information for food producers and consumers on new more robust studies confirming that it is safe to consume foods containing carrageenan. This article also presents actions being taken by carrageenan producers and users, to reduce the noise in the public domain from the controversy.     

Experimental and observational evidence reveals that predators in natural environments do not regulate their prey: They are passengers,not drivers

Among both ecologists and the wider community there is a tacit assumption that predators regulate populations of their prey. But there is evidence from a wide taxonomic and geographic range of studies that predators that are adapted to co-evolved prey generally do not regulate their prey. This is because predators either cannot reproduce as fast as their prey and/or are inefficient hunters unable to catch enough prey to sustain maximum reproduction. The greater capacity of herbivores to breed successfully is, however, normally restricted by a lack of enough food of sufficient quality to support reproduction. But whenever this shortage is alleviated by a large pulse of food, herbivores increase their numbers to outbreak levels. Their predators are unable to contain this increase, but their numbers, too, surge in response to this increase in food. Eventually both their populations will crash once the food supply runs out, first for the herbivores and then for the predators. Then an “over-run” of predators will further depress the already declining prey population, appearing to be controlling its abundance. This latter phenomenon has led many ecologists to conclude that predators are regulating the numbers of their prey. However, it is the same process that is revealed during outbreaks that limits populations of both predator and prey in “normal” times, although this is usually not readily apparent. Nevertheless, as all the diverse cases discussed here attest, the abundance of predators and their co-evolved prey are both limited by their food: the predators are passengers, not drivers.     

The mis-measure of manioc (Manihot esculenta,Euphorbiaceae)

The distinction between “bitter” and “sweet” (toxic and non-toxic) varieties of the cyanide-containing food crop manioc (Manihot esculenta, Euphorbiaceae) has a long tradition in the tropical forest areas of South and Central America where it was first cultivated. Yet this distinction has no taxonomic basis. The levels of cyanogenic glucosides found in manioc varieties not only vary widely, but do not correspond with any other known morphological or ecological feature. Nonetheless, these two “varieties” are commonly reported to have distinct geographical and cultural distributions and each is associated with a particular traditional food complex. This paper reviews the literature regarding the nature, distribution, and traditional uses of manioc varieties and concludes that (1) the geographical and cultural distribution of bitter and sweet varieties of manioc may not be as distinct as has been thought; (2) traditional categories of bitter and sweet manioc may stem more from culturally derived belief systems than from actual known levels of toxicity; and (3) the choice of complex and labor intensive processing methods usually associated with bitter manioc may not be required for detoxification but rather for the derived food products, particularly manioc flour.     

Die Wachstumskosten vonPorcellio scaber (Crustacea,Isopoda)

The assimilation of food inPorcellio scaber, considered over the entire life cycle, follows a two-phase function with a turning point at a body weight of about 3 mg. It is assumed that an important factor in this relationship is the efficiency of digestion, which should depend on the surface/volume ratio of the mid-gut and on the speed with which food is passed through the intestine. Calculation of these values reveals a size-dependent drop in efficiency of digestion roughly following the “surface rule”. The drop in efficiency of digestion may pose to the system a problem of information retrieval since inefficient digestion increases the “noise” level against which specific “signals” have to be selected — that is, specific molecules have to be absorbed and used in syntheses of cell constitutents. In order to offset decreasing efficiency of digestion, the system would have to increase redundancy, e. g. by assimilating progressively more food and thus, inevitably, increasing “cost” of some kind. The young larvae ofP. scaber, up to a body weight of 3 mg, do, in fact increase the amount of food assimilated in proportion to the calculated increase in redundancy. At about this critical size a switch in metabolism seems to take place, and weight specific assimilation of food decreases despite the continuously dropping efficiency of digestion. The actual use that the organism makes of the food ingested is represented by the ratio assimilation/cost of redundancy. Calculation of this ratio over the whole life cycle shows it to parallel neatly the curve for the monthly growth rate of the species.     

Behavior of males in a reproductive aggregation of the banded demoiselle Calopteryx splendens (Insecta, Odonata)

The view according to which damselfly males practice two alternative reproductive tactics of access to females is critically discussed. It is widely accepted that some males (“territorial” ones) have priority as potential female partners, while others (“sneakers” or “wanderers”) are incapable of retaining an individual territory. They have a chance of mating only by intruding briefly into the area defended by a “territorial” male when a female is present there. Thus, the tactics of a “territorial” male consists in waiting for a female in its territory and copulating with it “by agreement,” whereas non-territorial males resort to forced copulations. By observation of individually marked males (48 out of 118) it was shown that every male could be regarded as “territorial” during a certain period and as a “wanderer” before and after it. Thus, no correlation between the modes of space use by a male (residence/mobility) and the characters of its external morphology and/or signal behavior appears to be possible in principle. According to the data obtained, a more plausible explanation is that the female chooses not the male but the best area for oviposition. In addition, it was ascertained that adherence to forced copulations cannot constitute successful “tactics” since they rarely result in insemination, neither by “territorial” nor “non-territorial” males. In other words, we are dealing not with certain alternative tactics (i.e., specialized adaptive mechanisms that have evolved in the species) but simply with the results of different sets of circumstances at a given moment.     

A different approach to validating screening assays for developmental toxicity

BACKGROUND: There continue to be many efforts around the world to develop assays that are shorter than the traditional embryofetal developmental toxicity assay, or use fewer or no mammals, or use less compound, or have all three attributes. Each assay developer needs to test the putative assay against a set of performance standards, which traditionally has involved testing the assays against a list of compounds that are generally recognized as “positive” or “negative” in vivo. However, developmental toxicity is highly conditional, being particularly dependent on magnitude (i.e. dose) and timing of exposure, which makes it difficult to develop lists of compounds neatly assigned as developmental toxicants or not. APPROACH: Here we offer an alternative approach for the evaluation of developmental toxicity assays based on exposures. Exposures are classified as “positive” or “negative” in a system, depending on the compound and the internal concentration. Although this linkage to “internal dose” departs from the recent approaches to validation, it fits well with widely accepted principles of developmental toxicology. CONCLUSIONS: This paper introduces this concept, discusses some of the benefits and drawbacks of such an approach, and lays out the steps we propose to implement it for the evaluation of developmental toxicity assays. Birth Defects Res (Part B) 89:526–530, 2010. © 2010 Wiley‐Liss, Inc.     

Sex Cells: Gender and the Language of Bacterial Genetics

Between 1946 and 1960, a new phenomenon emerged in the field of bacteriology. “Bacterial sex,” as it was called, revolutionized the study of genetics, largely by making available a whole new class of cheap, fast-growing, and easily manipulated organisms. But what was “bacterial sex?” How could single-celled organisms have “sex” or even be sexually differentiated? The technical language used in the scientific press – the public and inalienable face of 20th century science – to describe this apparently neuter organism was explicit: the cells “copulated,” had “intimate contract,” “conjugal unions,” and engaged in “ménage ã trois” relationships. And yet, to describe bacteria as sexually reproducing organisms, the definition of sex itself had to change. Despite manifold contradictions and the availability of alternative language, the notion of sexually active (even promiscuous) single-celled organisms has persisted, even into contemporary textbooks on cell biology and genetics. In this paper I examine the ways in which bacteria were brought into the genetic fold, sexualized, and given gender; I also consider the issues underlying the durability of “bacterial sex.”     

Exogenous carbon turnover within the soil food web strengthens soil carbon sequestration through microbial necromass accumulation

Exogenous carbon turnover within soil food web is important in determining the trade-offs between soil organic carbon (SOC) storage and carbon emission. However, it remains largely unknown how soil food web influences carbon sequestration through mediating the dual roles of microbes as decomposers and contributors, hindering our ability to develop policies for soil carbon management. Here, we conducted a ¹³C-labeled straw experiment to demonstrate how soil food web regulated the residing microbes to influence the soil carbon transformation and stabilization process after 11 years of no-tillage. Our work demonstrated that soil fauna, as a “temporary storage container,” indirectly influenced the SOC transformation processes and mediated the SOC sequestration through feeding on soil microbes. Soil biota communities acted as both drivers of and contributors to SOC cycling, with 32.0% of exogenous carbon being stabilizing in the form of microbial necromass as “new” carbon. Additionally, the proportion of mineral-associated organic carbon and particulate organic carbon showed that the “renewal effect” driven by the soil food web promoted the SOC to be more stable. Our study clearly illustrated that soil food web regulated the turnover of exogenous carbon inputs by and mediated soil carbon sequestration through microbial necromass accumulation.     

The First International Seaweed Symposium held in Edinburgh,UK, 1952: applied seaweed science coming of age

Since the first commercial and systematic use of large brown algae for potash in the eighteenth century, chemists have applied their knowledge to benefit the industrial utilization of seaweeds. Towards the end of the nineteenth century, the focus of seaweed chemistry started to shift from the inorganic to the organic content. Trailing the chemists, seaweed botanists also became directly involved in the industrial efforts by surveying and assessing seaweed populations. In the 1930s, a modern seaweed industry emerged, based on seaweed polysaccharides and seaweed meal. Prior to World War II seaweed botanists, chemists and industrialists had no regular, joint international arena.The First International Seaweed Symposium (ISS) was held in Edinburgh, 14–17 July 1952. It was referred to as the follow-up of the limited: “Conference on utilization of seaweeds” which was held in Halifax, Nova Scotia, 1948. A main driving force was the Canadian war effort to extract substitute gelling materials from local seaweeds for use in the foodstuff industry. The conference in Halifax was rooted both in the annual Canadian “Irish Moss meetings” in Ottawa 1944–1947 and in the post-WWII expansion of regional laboratories of the National Research Council of Canada. The First ISS was attended by approximately 160 scientists from 21 countries. The symposium demonstrated the role and secured the position of this new applied, multi-disciplinary seaweed science.     

Future Ecological Risk Assessment: “Status Humana,” Man as the Measure

The current environmental paradigm of attempting to maintain, to the extent possible, the “status quo” is intellectually dishonest and untenable. Man has long been at least implicitly recognized as “the measure of all things.” Ecological risk assessments (ERAs) need to be based on the reality that humans have primacy in nature and are a major evolutionary force, albeit a selfish one: the “status humana” paradigm. A variety of facts are set out in support of this paradigm and to demonstrate both its relevance and its value. Examples of applications of this paradigm include hormesis, chemicals, food production and biodiversity, socioeconomic and environmental issues, ecotoxicology and bioavailability, introduced species, and environmental relevance.