Fermentative Metabolism Research Articles

Meat goat diet supplementation with crude glycerine: Ruminal fermentation metabolism, blood chemistry profile, animal performance and carcass traits.

The objective of this experiment was to determine the effects of feeding varying levels of crude glycerine (CG) on dry matter intake (DMI), animal performance, carcass traits and rumen volatile fatty acids (VFA) concentration in meat goats. Twenty-four intact male Boer goats (23.9±1.0kg initial BW and 4-5months of age) were randomly assigned to one of four experimental diets (n=6) containing 30% bermudagrass hay plus 70% concentrate mix with 0, 5, 10 or 15% CG in the diet on an as-fed basis, substituted for the corn portion of the concentrate. Feed offered and refusals were monitored daily for 84days. Goats were weighed at 28-days interval. Blood and rumen samples were collected on day 84. At the end of the 84-days feeding period, goats were harvested, and carcass characteristics measured. Feed intake, average daily gain (ADG), gain-to-feed ratio (G:F), carcass traits and VFA concentrations were analysed as a completely randomized design. The CG did not influence animal body weight (BW) changes, ADG and G:F ratio but tended to (p=0.06) decrease DMI. Molar per cent propionic acid increased linearly (p<0.05) with increasing CG. The acetate: propionate (A:P) ratio decreased (p<0.05) with increasing amounts of CG in the diet. The CG addition tended to increase (p=0.09) the longissimus muscle (LM area) in meat goats. In conclusion, CG can replace corn in diet for growing meat goats when fed up to 15% of diet, improving ruminal propionate concentration, but decreasing A:P ratio without affecting animal performance and carcass traits.

Up-regulated glycolysis, TCA, fermentation and energy metabolism promoted the sugar receding in ‘Shixia’ longan (Dimocarpus longan Lour.) pulp

Sugar receding, a drastic decrease of total soluble solid (TSS) in pulp, leads to decreased sweetness and deterioration of longan fruits during on-tree preservation. Although soluble acid invertases were proved as key factors regulating sugar receding, systematic analysis of the other pathways regulating this process was still lacked. Significant decreased TSS (by 40.61%) and sucrose (by 66.71%) but slight decreased fructose and glucose during 95–127 days after flowering (DAF) indicated a rapid conversion of sucrose to hexose and consumption of hexose in ‘Shixia’ longan pulp. TMT-labeled proteomic analysis of longan pulp at 95, 110 and 127 DAF identified 575 proteins differently expressed (≧1.2-fold or ≦0.833-fold) in at least two stages (BDEPs). GO annotation of the BDEPs showed that the enriched biological processes terms were: response to inorganic substance, cadmium ion, stimulus and chemical, catabolic processes of carbohydrate, glucose, monosaccharide and hexose, and monosaccharide metabolic process. Mapman visualization of the BDEPs indicated that down-regulation of the key proteins involved in starch synthesis & degradation (ie. Starch phosphorylase L & isoamylase), sucrose synthesis (ie. sucrose-phosphate synthase & sucrose-6-phosphatase) and cytoplasmic sucrose degradation (ie. neutral invertase, sucrose synthase) but up-regulation of the enzymes for vacuolar sucrose degradation (soluble acid invertase) and most of the proteins involved in the cytosolic and plastidial glycolysis (Calvin cycle), fermentation, TCA, and energy metabolism promoted the consumption of hexose. Taken together, the up-regulated glycolysis, fermentation, TCA and energy metabolism might promote sucrose decomposition and thus sugar receding of longan pulp.

Bi-directional electron transfer between H2 and NADPH mitigates light fluctuation responses in green algae.

The metabolism of green algae has been the focus of much research over the last century. These photosynthetic organisms can thrive under various conditions and adapt quickly to changing environments by concomitant usage of several metabolic apparatuses. The main electron coordinator in their chloroplasts, nicotinamide adenine dinucleotide phosphate (NADPH), participates in many enzymatic activities and is also responsible for inter-organellar communication. Under anaerobic conditions, green algae also accumulate molecular hydrogen (H2), a promising alternative for fossil fuels. However, to scale-up its accumulation, a firm understanding of its integration in the photosynthetic apparatus is still required. While it is generally accepted that NADPH metabolism correlates to H2 accumulation, the mechanism of this collaboration is still vague and relies on indirect measurements. Here, we investigated this connection in Chlamydomonas reinhardtii using simultaneous measurements of both dissolved gases concentration, NADPH fluorescence and electrochromic shifts at 520-546 nm. Our results indicate that energy transfer between H2 and NADPH is bi-directional and crucial for the maintenance of redox balance under light fluctuations. At light onset, NADPH consumption initially eventuates in H2 evolution, which initiates the photosynthetic electron flow. Later on, as illumination continues the majority of NADPH is diverted to the Calvin-Benson-Bassham cycle. Dark onset triggers re-assimilation of H2, which produces NADPH and so, enables initiation of dark fermentative metabolism.

Enrichment of novel Verrucomicrobia, Bacteroidetes, and Krumholzibacteria in an oxygen-limited methane- and iron-fed bioreactor inoculated with Bothnian Sea sediments.

Microbial methane oxidation is a major biofilter preventing larger emissions of this powerful greenhouse gas from marine coastal areas into the atmosphere. In these zones, various electron acceptors such as sulfate, metal oxides, nitrate, or oxygen can be used. However, the key microbial players and mechanisms of methane oxidation are poorly understood. In this study, we inoculated a bioreactor with methane‐ and iron‐rich sediments from the Bothnian Sea to investigate microbial methane and iron cycling under low oxygen concentrations. Using metagenomics, we investigated shifts in microbial community composition after approximately 2.5 years of bioreactor operation. Marker genes for methane and iron cycling, as well as respiratory and fermentative metabolism, were identified and used to infer putative microbial metabolism. Metagenome‐assembled genomes representing novel Verrucomicrobia, Bacteroidetes, and Krumholzibacteria were recovered and revealed a potential for methane oxidation, organic matter degradation, and iron cycling, respectively. This work brings new hypotheses on the identity and metabolic versatility of microorganisms that may be members of such functional guilds in coastal marine sediments and highlights that microorganisms potentially composing the methane biofilter in these sediments may be more diverse than previously appreciated.

Unravelling the Role of Rumen Microbial Communities, Genes, and Activities on Milk Fatty Acid Profile Using a Combination of Omics Approaches.

Milk products are an important component of human diets, with beneficial effects for human health, but also one of the major sources of nutritionally undesirable saturated fatty acids (SFA). Recent discoveries showing the importance of the rumen microbiome on dairy cattle health, metabolism and performance highlight that milk composition, and potentially milk SFA content, may also be associated with microorganisms, their genes and their activities. Understanding these mechanisms can be used for the development of cost-effective strategies for the production of milk with less SFA. This work aimed to compare the rumen microbiome between cows producing milk with contrasting FA profile and identify potentially responsible metabolic-related microbial mechanisms. Forty eight Holstein dairy cows were fed the same total mixed ration under the same housing conditions. Milk and rumen fluid samples were collected from all cows for the analysis of fatty acid profiles (by gas chromatography), the abundances of rumen microbiome communities and genes (by whole-genome-shotgun metagenomics), and rumen metabolome (using 500 MHz nuclear magnetic resonance). The following groups: (i) 24 High-SFA (66.9–74.4% total FA) vs. 24 Low-SFA (60.2–66.6%% total FA) cows, and (ii) 8 extreme High-SFA (69.9–74.4% total FA) vs. 8 extreme Low-SFA (60.2–64.0% total FA) were compared. Rumen of cows producing milk with more SFA were characterized by higher abundances of the lactic acid bacteria Lactobacillus, Leuconostoc, and Weissella, the acetogenic Proteobacteria Acetobacter and Kozakia, Mycobacterium, two fungi (Cutaneotrichosporon and Cyphellophora), and at a lesser extent Methanobrevibacter and the protist Nannochloropsis. Cows carrying genes correlated with milk FA also had higher concentrations of butyrate, propionate and tyrosine and lower concentrations of xanthine and hypoxanthine in the rumen. Abundances of rumen microbial genes were able to explain between 76 and 94% on the variation of the most abundant milk FA. Metagenomics and metabolomics analyses highlighted that cows producing milk with contrasting FA profile under the same diet, also differ in their rumen metabolic activities in relation to adaptation to reduced rumen pH, carbohydrate fermentation, and protein synthesis and metabolism.

Low Molecular Weight Barley β-Glucan Affects Glucose and Lipid Metabolism by Prebiotic Effects.

We investigated the effect of low molecular weight barley β-glucan (LMW-BG) on cecal fermentation, glucose, and lipid metabolism through comparisons to high molecular weight β-glucan (HMW-BG). C57BL/6J male mice were fed a moderate-fat diet for 61 days. LMW-BG or HMW-BG was added to the diet corresponding to 4% β-glucan. We measured the apparent absorption of fat, serum biomarkers, the expression levels of genes involved in glucose and lipid metabolism in the liver and ileum, and bacterial counts of the major microbiota groups using real time PCR. The concentration of short-chain fatty acids (SCFAs) in the cecum was analyzed by GC/MS. Significant reductions in serum leptin, total- and LDL-cholesterol concentrations, and mRNA expression levels of sterol regulatory element-binding protein-1c (SREBP-1c) were observed in both BG groups. HMW-BG specific effects were observed in inhibiting fat absorption and reducing abdominal deposit fat, whereas LMW-BG specific effects were observed in increasing bacterial counts of Bifidobacterium and Bacteroides and cecal total SCFAs, acetate, and propionate. mRNA expression of neurogenin 3 was increased in the LMW-BG group. We report that LMW-BG affects glucose and lipid metabolism via a prebiotic effect, whereas the high viscosity of HMW-BG in the digestive tract is responsible for its specific effects.

Harnessing the nutritional potential of concentrated whey for enhanced galactose flux in fermentative yeast

The primary effluent of Indian dairy industries, cheese whey, and its main component lactose is considered an environmental pollutant due to its high chemical and biological oxygen demand. The model fermentative yeast, Saccharomyces cerevisiae, does not possess the necessary enzyme to utilize lactose in whey. In the present study, metabolic engineering of wild type S. cerevisiae strain with CRISPR Cas9 system was used to construct a cell factory that can flux higher galactose from the concentrated whey medium. The improved utilization of galactose confers fermentative metabolism with improved ethanol production rate. The strain provided a high titer of the ethanol (0.32 ± 0.007 g/g) with improved galactose flux from concentrated whey at the expense of the biomass, glycerol, and acetic acid. Our present study provides evidence that galactose to ethanol fermentation is a feasible alternative for industrial waste stream treatment in developing countries.

Secondary Aroma: Influence of Wine Microorganisms in Their Aroma Profile.

Aroma profile is one of the main features for the acceptance of wine. Yeasts and bacteria are the responsible organisms to carry out both, alcoholic and malolactic fermentation. Alcoholic fermentation is in turn, responsible for transforming grape juice into wine and providing secondary aromas. Secondary aroma can be influenced by different factors; however, the influence of the microorganisms is one of the main agents affecting final wine aroma profile. Saccharomyces cerevisiae has historically been the most used yeast for winemaking process for its specific characteristics: high fermentative metabolism and kinetics, low acetic acid production, resistance to high levels of sugar, ethanol, sulfur dioxide and also, the production of pleasant aromatic compounds. Nevertheless, in the last years, the use of non-saccharomyces yeasts has been progressively growing according to their capacity to enhance aroma complexity and interact with S. cerevisiae, especially in mixed cultures. Hence, this review article is aimed at associating the main secondary aroma compounds present in wine with the microorganisms involved in the spontaneous and guided fermentations, as well as an approach to the strain variability of species, the genetic modifications that can occur and their relevance to wine aroma construction.

Impact of condensed tannin-containing legumes on ruminal fermentation, nutrition, and performance in ruminants: a review

Legume forages, such as sainfoin (Onobrychis viciifolia Scop.) and birdsfoot trefoil (Lotus corniculatus L.), can increase the forage quality and quantity of Western Canadian pastures, thus increasing producer profitability due to increased gains in grazing ruminants, while also reducing risk of bloat in legume pastures due to the presence of proanthocyanidins. Proanthocyanidins or condensed tannins (CT) are secondary plant polyphenol compounds that have been regarded as anti-nutritional due to their ability to bind protein in feeds, enzymes, and microbial cells, therefore disrupting microbial digestion and slowing ruminal protein and dry matter (DM) digestion. Research has shown that at high concentrations (&gt;50 g·kg−1 DM), CT can disrupt microbial digestion. However, at low dietary inclusion rates (5–10 g·kg−1 DM), they reduce bloat risk, increase ruminal undegradable protein, reduce enteric methane production, and benefit anthelmintic activity. Yet, research gaps still exist regarding grazing persistence and forage yield of novel CT-containing forages and their biological activity due to their vast differences in CT stereochemistry, polymer size, and intermolecular linkages. The objectives of this review are to summarize information regarding the impact of CT on ruminal fermentation, carbohydrate and protein metabolism, and the potential to identify and select for forages that contain CT for ruminant production.

Characterization of the Streptococcus mutans SMU.1703c-SMU.1702c Operon Reveals Its Role in Riboflavin Import and Response to Acid Stress.

Streptococcus mutans utilizes numerous metabolite transporters to obtain essential nutrients in the "feast or famine" environment of the human mouth. S. mutans and most other streptococci are considered auxotrophic for several essential vitamins including riboflavin (vitamin B2), which is used to generate key cofactors and to perform numerous cellular redox reactions. Despite the well-known contributions of this vitamin to central metabolism, little is known about how S. mutans obtains and metabolizes B2 The uncharacterized protein SMU.1703c displays high sequence homology to the riboflavin transporter RibU. Deletion of SMU.1703c hindered S. mutans growth in complex and defined medium in the absence of saturating levels of exogenous riboflavin, whereas deletion of cotranscribed SMU.1702c alone had no apparent effect on growth. Expression of SMU.1703c in a Bacillus subtilis riboflavin auxotroph functionally complemented growth in nonsaturating riboflavin conditions. S. mutans was also able to grow on flavin adenine dinucleotide (FAD) or flavin mononucleotide (FMN) in an SMU.1703c-dependent manner. Deletion of SMU.1703c and/or SMU.1702c impacted S. mutans acid stress tolerance, as all mutants showed improved growth at pH 5.5 compared to that of the wild type when medium was supplemented with saturating riboflavin. Cooccurrence of SMU.1703c and SMU.1702c, a hypothetical PAP2 family acid phosphatase gene, appears unique to the streptococci and may suggest a connection of SMU.1702c to the acquisition or metabolism of flavins within this genus. Identification of SMU.1703c as a RibU-like riboflavin transporter furthers our understanding of how S. mutans acquires essential micronutrients within the oral cavity and how this pathogen successfully competes within nutrient-starved oral biofilms.IMPORTANCE Dental caries form when acid produced by oral bacteria erodes tooth enamel. This process is driven by the fermentative metabolism of cariogenic bacteria, most notably Streptococcus mutans Nutrient acquisition is key in the competitive oral cavity, and many organisms have evolved various strategies to procure carbon sources or necessary biomolecules. B vitamins, such as riboflavin, which many oral streptococci must scavenge from the oral environment, are necessary for survival within the competitive oral cavity. However, the primary mechanism and proteins involved in this process remain uncharacterized. This study is important because it identifies a key step in S. mutans riboflavin acquisition and cofactor generation, which may enable the development of novel anticaries treatment strategies via selective targeting of metabolite transporters.

Constitutive expression of Arabidopsis bZIP transcription factor AREB1 activates cross-signaling responses in soybean under drought and flooding stresses

Abiotic stress, such as drought and flooding, are responsible for considerable losses in grain production worldwide. Soybean, the main cultivated oilseed in the world, is sensitive to both stresses. Plant molecular mechanisms answer via crosstalk of several signaling pathways, in which particular genes can respond to different stresses. Previous studies confirmed that overexpression of transcription factor AtAREB1 confers drought tolerance in soybean. However, plants containing this gene have not yet been tested under flooding. Thus, the objective of this study was to characterize genetically modified (GM) soybean plants overexpressing AtAREB1 under drought and flooding conditions in comparison to its genetic background. Physiological and biochemical measurements were performed. In addition, the expression level of genes commonly activated under both stresses was evaluated. The results supported the role of the AtAREB1 gene in conferring tolerance to water deficit in soybeans. Furthermore, under flooding, the GM line was efficient in maintaining a higher photosynthetic rate, intrinsic efficiency in water use, and instantaneous carboxylation efficiency, resulting in higher grain yield under stress. The GM line also presented higher protein content, lower concentration of hydrogen peroxide, and lower expression levels of genes related to fermentative metabolism and alanine biosynthesis. These results indicate that in addition to drought stress, plants overexpressing AtAREB1 exhibited better performance under flooding when compared to the non-GM line, suggesting a cross-signaling response to both abiotic factors.

Enological Repercussions of Non-Saccharomyces Species 2.0

Non-Saccharomyces yeast species are currently a biotechnology trend in enology and broadly used to improve the sensory profile of wines because they affect aroma, color, and mouthfeel. They have become a powerful biotool to modulate the influence of global warming on grape varieties, helping to maintain the acidity, decrease the alcoholic degree, stabilize wine color, and increase freshness. In cool climates, some non-Saccharomyces can promote demalication or color stability by the formation of stable derived pigments. Additionally, non-Saccharomyces yeasts open new possibilities in biocontrol for removing spoilage yeast and bacteria or molds that can produce and release mycotoxins, and therefore, can help in reducing SO2 levels. The promising species Hanseniaspora vineae is analyzed in depth in this Special Issue in two articles, one concerning the glycolytic and fermentative metabolisms and its positive role and sensory impact by the production of aromatic esters and lysis products during fermentation are also assessed.

Dynamic regulation of coral energy metabolism throughout the diel cycle

Coral reefs are naturally exposed to daily and seasonal variations in environmental oxygen levels, which can be exacerbated in intensity and duration by anthropogenic activities. However, coral’s diel oxygen dynamics and fermentative pathways remain poorly understood. Here, continuous oxygen microelectrode recordings in the coral diffusive boundary layer revealed hyperoxia during daytime and hypoxia at nighttime resulting from net photosynthesis and net respiration, respectively. The activities of the metabolic enzymes citrate synthase (CS), malate dehydrogenase, and strombine dehydrogenase remained constant throughout the day/night cycle, suggesting that energy metabolism was regulated through adjustments in metabolite fluxes and not through changes in enzyme abundance. Liquid chromatography-mass spectrometry analyses identified strombine as coral’s main fermentative end product. Strombine levels peaked as oxygen became depleted at dusk, indicating increased fermentation rates at the onset of nightly hypoxia, and again at dawn as photosynthesis restored oxygen and photosynthate supply. When these peaks were excluded from the analyses, average strombine levels during the day were nearly double those at night, indicating sifnificant fermentation rates even during aerobic conditions. These results highlight the dynamic changes in oxygen levels in the coral diffusive boundary layer, and the importance of fermentative metabolism for coral biology.

Can natural selection and druggable targets synergize? Of nutrient scarcity, cancer, and the evolution of cooperation.

Since the dawn of molecular biology, cancer therapy has focused on druggable targets. Despite some remarkable successes, cell-level evolution remains a potent antagonist to this approach. We suggest that a deeper understanding of the breakdown of cooperation can synergize the evolutionary and druggable-targets approaches. Complexity requires cooperation, whether between cells of different species (symbiosis) or between cells of the same organism (multicellularity). Both forms of cooperation may be associated with nutrient scarcity, which in turn may be associated with a chemiosmotic metabolism. A variety of examples from modern organisms supports these generalities. Indeed, mammalian cancers-unicellular, glycolytic, and fast-replicating-parallel these examples. Nutrient scarcity, chemiosmosis, and associated signaling may favor cooperation, while under conditions of nutrient abundance a fermentative metabolism may signal the breakdown of cooperation. Manipulating this metabolic milieu may potentiate the effects of targeted therapeutics. Specific opportunities are discussed in this regard, including avicins, a novel plant product.

Arabidopsis phenotyping reveals the importance of alcohol dehydrogenase and pyruvate decarboxylase for aerobic plant growth

Alcohol dehydrogenase (ADH) and pyruvate decarboxylase (PDC) are key to the establishment of the fermentative metabolism in plants during oxygen shortage. Most of the evidence that both ADH and PDC are required for plant tolerance to hypoxia comes from experiments performed by limiting oxygen in the environment, such as by exposing plants to gaseous hypoxia or to waterlogging or submergence. However, recent experiments have shown that hypoxic niches might exist in plants grown in aerobic conditions. Here, we investigated the importance of ADH and PDC for plant growth and development under aerobic conditions, long-term waterlogging and short-term submergence. Data were collected after optimizing the software associated with a commercially-available phenotyping instrument, to circumvent problems in separation of plants and background pixels based on colour features, which is not applicable for low-oxygen stressed plants due to the low colour contrast of leaves with the brownish soil. The results showed that the growth penalty associated with the lack of functional ADH1 or both PDC1 and PDC2 is greater under aerobic conditions than in hypoxia, highlighting the importance of fermentative metabolism in plants grown under normal, aerobic conditions.

Identification of nitric oxide (NO)-responsive genes under hypoxia in tomato (Solanum lycopersicum L.) root

Flooding periods, as one probable consequence of climate change, will lead more frequently to plant hypoxic stress. Hypoxia sensing and signaling in the root, as the first organ encountering low oxygen, is therefore crucial for plant survival under flooding. Nitric oxide has been shown to be one of the main players involved in hypoxia signaling through the regulation of ERFVII transcription factors stability. Using SNP as NO donor, we investigated the NO-responsive genes, which showed a significant response to hypoxia. We identified 395 genes being differentially regulated under both hypoxia and SNP-treatment. Among them, 251 genes showed up- or down-regulation under both conditions which were used for further biological analysis. Functional classification of these genes showed that they belong to different biological categories such as primary carbon and nitrogen metabolism (e.g. glycolysis, fermentation, protein and amino acid metabolism), nutrient and metabolites transport, redox homeostasis, hormone metabolism, regulation of transcription as well as response to biotic and abiotic stresses. Our data shed light on the NO-mediated gene expression modulation under hypoxia and provides potential targets playing a role in hypoxia tolerance. These genes are interesting candidates for further investigating their role in hypoxia signaling and survival.

Effect of Calcium‐Fortified Potato Starch on Cecal Fermentation and Fat Accumulation in Rats

AbstractCalcium‐fortified potato starch (Ca‐PS) is fed to rats for four weeks, and the effects on cecal fermentation and lipid metabolism are evaluated. The relative abundance of Bifidobacterium pseudolongum in rat cecum is higher in the PS and Ca‐PS groups than in the control group. Cecal acetate content is higher in the Ca‐PS group than in the control, high‐amylose cornstarch (HAS), and PS groups, and is positively correlated with the relative abundance of B. pseudolongum. The relative abundance of the Clostridiaceae family is higher in the PS and Ca‐PS groups than in the control and HAS groups, and is positively correlated with the cecal n‐butyrate content and the molar proportion of n‐butyrate in total‐SCFA. Furthermore, the consumption of PS and Ca‐PS reduces the serum and hepatic triglyceride levels and mesenteric adipocyte area in rats. Therefore, Ca‐PS may have beneficial effects that enhance cecal fermentation, especially in terms of cecal acetate production, which further suppresses fat accumulation. This is the first study to report the physiological effects of Ca‐PS.

Improved production of 2,3-butanediol and isobutanol by engineering electron transport chain in Escherichia coli.

The electron transport chain (ETC) is one of the major energy generation pathways in microorganisms under aerobic condition. Higher yield of ATP can be achieved through oxidative phosphorylation with consumption of NADH than with substrate level phosphorylation. However, most value-added metabolites are in an electrochemically reduced state, which requires reducing equivalent NADH as a cofactor. Therefore, optimal production of value-added metabolites should be balanced with ETC in terms of energy production. In this study, we attempted to reduce the activity of ETC to secure availability of NADH. The ETC mutants exhibited poor growth rate and production of fermentative metabolites compared to parental strain. Introduction of heterologous pathways for synthesis of 2,3-butanediol and isobutanol to ETC mutants resulted in increased titres and yields of the metabolites. ETC mutants yielded higher NADH/NAD+ ratio but similar ATP content than that by the parental strain. Furthermore, ETC mutants operated fermentative metabolism pathways independent of oxygen supply in large-scale fermenter, resulting in increased yield and titre of 2,3-butanediol. Thus, engineering of ETC is a useful metabolic engineering approach for production of reduced metabolites.

Draft genome sequence of Lactobacillus plantarum strain DMR17 isolated from homemade cow dahi of Sikkim Himalayan region: an evaluation of lactate fermentation and secondary metabolism.

Lactobacillus plantarum DMR17 was isolated from homemade cow dahi of Sikkim Himalayan region of India. Here, we report the draft genome sequence of this strain. A total of 21,176,638 paired-end reads were obtained which were assembled into 65 contigs. The reference genome used was L. plantarum WCFS1. The genome size of DMR17 was 3,228,341bp with G + C content of 46.25%. 3302 coding sequences were predicted including 68 tRNA and 67 rRNA genes. More than 88% of the total pre-processed reads from the sample were mapped to the reference genome. The identified coding proteins were classified into 27 functional categories based on COG classification. The genome was found to possess genes for lactate and mixed acid fermentation. The genome also showed the presence of genes for catabolism of aromatic compounds, phosphorous, and other metabolism. The genome information of L. plantarum DMR17 provides the basis for understanding the functional properties and to consider its use as a potential component of functional foods especially dahi.

Time-course biochemical analyses of soybean plants during waterlogging and reoxygenation

Soil waterlogging and subsequent reoxygenation can severely impair soybean (Glycine max) growth and productivity. Here we aimed at showing the main biochemical events that occur in soybean plants during waterlogging and reoxygenation conditions. Roots and leaves were analyzed from the first hour up to ten days of waterlogging and reoxygenation imposition. During the first hours of waterlogging, reactive oxygen species (ROS) and nitric oxide (NO) accumulated in roots and leaves. In roots, only NO levels were persistent, while ROS peaked and decreased over time. In leaves, both ROS and NO increased and remain at high levels during the entire experiment. Despite the increased activity of antioxidant enzymes, malondialdehyde (MDA) levels increased and photosynthetic pigment levels declined. The NO levels increased in response to the increment in nitrate reductase activity in the roots, while in the leaves additional biosynthetic pathways seemed to be involved. The activity of fermentative enzymes and the accumulation of lactate and ethanol occurred after a few hours of waterlogging. Regarding reoxygenation, the transient increase in ROS and NO levels were again observed in roots as well as the increase in MDA levels and antioxidant enzyme activities. In leaves, the levels of ROS and NO decreased as did the activity of the antioxidant enzymes and the MDA levels. In contrast, the levels of photosynthetic pigments increased to pre-waterlogging levels. Both the activity and products of fermentative metabolism decreased. Overall, the biochemical events in soybean plants under waterlogging and reoxygenation conditions are dynamic and change during the time course of stress.