The composition of the proteinaceous polysaccharides exuded by astragalus microcephalus,A. Gummifer and A. Kurdicus—The sources of turkish gum tragacanth

Gum tragacanth is a variable commodity because commercial samples may legitimately be admixtures, in any relative proportions, of the exudates from Asiatic Astragalus spp. Analytical data show that the exudates collected from the three major contributing Turkish spp., A. microcephalus, A. gummifer and A. kurdicus, differ extensively, particularly in terms of their fucose, xylose, galacturonic acid and methoxyl contents and in the relative proportions of their soluble (tragacanthin) and insoluble (bassorin) components. In addition, these three Astragalus exudates are shown to be proteinaceous polysaccharides; their amino acid compositions differ, particularly in terms of their hydroxyproline, histidine, aspartic acid and arginine content. In contrast, the amino acid compositions of the soluble and insoluble components of A. kurdicus do not differ extensively.     

Engineering Escherichia coli to convert acetic acid to free fatty acids

Fatty acids (FAs) are promising precursors of advanced biofuels. This study investigated conversion of acetic acid (HAc) to FAs by an engineered Escherichia coli strain. We combined established genetic engineering strategies including overexpression of acs and tesA genes, and knockout of fadE in E. coli BL21, resulting in the production of ~1 g/L FAs from acetic acid. The microbial conversion of HAc to FAs was achieved with ~20% of the theoretical yield. We cultured the engineered strain with HAc-rich liquid wastes, which yielded ~0.43 g/L FAs using waste streams from dilute acid hydrolysis of lignocellulosic biomass and ~0.17 g/L FAs using effluent from anaerobic-digested sewage sludge. ¹³C-isotopic experiments showed that the metabolism in our engineered strain had high carbon fluxes toward FAs synthesis and TCA cycle in a complex HAc medium. This proof-of-concept work demonstrates the possibility for coupling the waste treatment with the biosynthesis of advanced biofuel via genetically engineered microbial species.     

Effects of conservation method on fatty acid composition of silage

This experiment was conducted to investigate effects of wilting and additives on the fatty acid (FA) composition of grass silage. The crop used was timothy (Phelum pratense L., cv. Grindstad), and the additives were Proens? (formic acid and propionic acid, 60–66 g/100 g and 25–30 g/100 g, respectively), the bacterial inoculant Siloferm® Plus (Pediococcus acidilactici and Lactobacillus plantarum) and water (control). The wilted material reached a dry matter (DM) content of 336 g/kg at the first cut and 350 g/kg at the second cut. Neither wilting nor the additives had any major effect on the FA proportions, with the only differences in the concentrations of C16:0 and C18:3. Silage treated with bacterial inoculant contained a higher proportion of C16:0 (P<0.05) than silage treated with acid, and a lower (P<0.05) concentration of C18:3 than silage treated with either of the other two additives. In the silages, there were lower (P<0.05) proportions of C16:0, C18:0, C18:1 and C18:3, and higher (P<0.05) proportions of C16:1, C18:2 and other identified FAs, than in the fresh material. A wilting process shorter than 24 h, to a DM content of 330–350 g/kg, did not have any effect on the proportions of FAs in P. pratense L., cv. Grindstad. Since the different additives and wilting strategies tested in this study did not affect the proportions of FAs in silage to a major extent, the results indicate that such a process offers a robust means to avoid losses of FAs that can occur during wilting, while retaining the positive effects of wilting, such as reduced losses of nutrients through effluents.     

The relationship between Pseudo-nitzschia (Peragallo) and domoic acid in Scottish shellfish

The diatom genus Pseudo-nitzschia (Peragallo) associated with the production of domoic acid (DA), the toxin reposnsible for amnesic shellfish poisoning, is abundant in Scottish waters. A two year study examined the relationship between Pseudo-nitzschia cells in the water column and DA concentration in blue mussels (Mytilus edulis) at two sites, and king scallops (Pecten maximus) at one site. The rate of DA uptake and depuration differed greatly between the two species with M. edulis whole tissue accumulating and depurating 7 μg g⁻¹ (now expressed as mg kg⁻¹) per week. In contrast, it took 12 weeks for DA to depurate from P. maximus gonad tissue from a concentration of 68 μg g⁻¹ (now mg kg⁻¹) to <20 μg g⁻¹ (now mg kg^‐1). The DA depuration rate from P. maximus whole tissue was <5% per week during both years of the study. Correlations between the Pseudo-nitzschia cell densities and toxin concentrations were weak to moderate for M. edulis and weak for P. maximus. Seasonal diversity on a species level was observed within the Pseudo-nitzschia genus at both sites with more DA toxicity associated with summer/autumn Pseudo-nitzschia blooms when P. australis was observed in phytoplankton samples. This study reveals the marked difference in DA uptake and depuration in two shellfish species of commercial importance in Scotland. The use of these shellfish species to act as a proxy for DA in the environment still requires investigation.     

Diurnal patterns of abundance of aphidophagous lady beetle species on chili (Capsicum annuum L.)

The influence of temperature on the diurnal activity of five species of aphidophagous lady beetles (Coleoptera: Coccinellidae) was investigated between 0700 and 1900 h in chili (Capsicum annuum L.) agroecosystems and neighboring vegetation (goose grass, Eleusine indica L.). The lady beetle species observed were Menochilus sexmaculatus Fabricius, Coelophora inaequalis F., Coccinella transversalis F., Harmonia octomaculata F. and Coelophora bissellata Mulsant. More lady beetles (of all species) were found during cooler periods (at 0700, 0900, 1100, and 1900 h). The diurnal pattern of lady beetle adult was temperature dependent. On chili plants, numbers were higher at temperatures between 22 to 30 °C (at 0700, 0900, 1100 and 1900 h) and numbers decreased when temperatures were above 30 °C. When temperature was above 30 °C under the chili plant canopy, numbers were higher in neighboring goose grass, where temperatures were cooler (< 30 °C). Numbers of all species were negative correlated between chili plant and goose grass.     

Feeding by the newly described heterotrophic dinoflagellate Stoeckeria changwonensis: A comparison with other species in the family Pfiesteriaceae

The feeding ecology of the newly described heterotrophic dinoflagellate Stoeckeria changwonensis was explored. The feeding behavior of S. changwonensis, and the kinds of prey species that it feeds on were investigated with several different types of microscopes and high-resolution video-microscopy. Additionally, the growth and ingestion rates of S. changwonensis as a function of prey concentration for perch (Lateolabrax japonicus) blood cells, the raphidophyte Heterosigma akashiwo, the cryptophytes Rhodomonas salina and Teleaulax sp., and the phototrophic dinoflagellate Amphidinium carterae prey were measured. S. changwonensis feeds on prey through a peduncle, after anchoring the prey by using a tow filament. This type of feeding behavior is similar to that of Stoeckeria algicida, Pfiesteria piscicida, and Luciella masanensis in the family Pfiesteriaceae; however, S. changwonensis feeds on various kinds of prey species different from those of the other heterotrophic dinoflagellates. S. changwonensis ingested perch blood cells and diverse algal species, in particular, the large thecate dinoflagellate Lingulodinium polyedrum which are not eaten by the other peduncle feeders. H. akashiwo and the perch blood cells supported positive growth of S. changwonensis, but R. salina, Teleaulax sp., and A. carterae which support positive growth of P. piscicida and L. masanensis did not support positive growth of S. changwonensis. With increasing mean prey concentration the growth rates for S. changwonensis on H. akashiwo and the perch blood cells increased rapidly and then slowly or became saturated. The maximum growth rates of S. changwonensis on H. akashiwo and the perch blood cells were 0.376 and 0.354 d⁻¹, respectively. Further, the maximum ingestion rates of S. changwonensis on H. akashiwo and the perch blood cells were 0.35 ng C predator⁻¹ d⁻¹ (3.5 cells predator⁻¹ d⁻¹) and 0.27 ng C predator⁻¹ d⁻¹ (29 cells predator⁻¹ d⁻¹), respectively. These maximum growth and ingestion rates of S. changwonensis on H. akashiwo, the perch blood cells, R. salina, Teleaulax sp., and A. carterae differed considerably from those of S. algicida, P. piscicida, and L. masanensis on the same prey species. Thus, the feeding behavior of S. changwonensis may differ from that of other species in the family Pfiesteriaceae.     

Mixotrophy in the phototrophic dinoflagellate Takayama helix (family Kareniaceae): Predator of diverse toxic and harmful dinoflagellates

Takayama spp. are phototrophic dinoflagellates belonging to the family Kareniaceae and have caused fish kills in several countries. Understanding their trophic mode and interactions with co-occurring phytoplankton species are critical steps in comprehending their ecological roles in marine ecosystems, bloom dynamics, and dinoflagellate evolution. To investigate the trophic mode and interactions of Takayama spp., the ability of Takayama helix to feed on diverse algal species was examined, and the mechanisms of prey ingestion were determined. Furthermore, growth and ingestion rates of T. helix feeding on the dinoflagellates Alexandrium lusitanicum and Alexandrium tamarense, which are two optimal prey items, were determined as a function of prey concentration. T. helix ingested large dinoflagellates ≥15 μm in size, except for the dinoflagellates Karenia mikimotoi, Akashiwo sanguinea, and Prorocentrum micans (i.e., it fed on Alexandrium minutum, A. lusitanicum, A. tamarense, A. pacificum, A. insuetum, Cochlodinium polykrikoides, Coolia canariensis, Coolia malayensis, Gambierdiscus caribaeus, Gymnodinium aureolum, Gymnodinium catenatum, Gymnodinium instriatum, Heterocapsa triquetra, Lingulodinium polyedrum, and Scrippsiella trochoidea). All these edible prey items are dinoflagellates that have diverse eco-physiology such as toxic and non-toxic, single and chain forming, and planktonic and benthic forms. However, T. helix did not feed on small flagellates and dinoflagellates <13 μm in size (i.e., the prymnesiophyte Isochrysis galbana; the cryptophytes Teleaulax sp., Storeatula major, and Rhodomonas salina; the raphidophyte Heterosigma akashiwo; the dinoflagellates Heterocapsa rotundata, Amphidinium carterae, Prorocentrum minimum; or the small diatom Skeletonema costatum). T. helix ingested Heterocapsa triquetra by direct engulfment, but sucked materials from the rest of the edible prey species through the intercingular region of the sulcus. With increasing mean prey concentration, the specific growth rates of T. helix on A. lusitanicum and A. tamarense increased continuously before saturating at prey concentrations of 336–620 ng C mL⁻¹. The maximum specific growth rates (mixotrophic growth) of T. helix on A. lusitanicum and A. tamarense were 0.272 and 0.268 d⁻¹, respectively, at 20 °C under a 14:10 h light/dark cycle of 20 μE m⁻² s⁻¹ illumination, while its growth rates (phototrophic growth) under the same light conditions without added prey were 0.152 and 0.094 d⁻¹, respectively. The maximum ingestion rates of T. helix on A. lusitanicum and A. tamarense were 1.23 and 0.48 ng C predator⁻¹d⁻¹, respectively. The results of the present study suggest that T. helix is a mixotrophic dinoflagellate that is able to feed on a diverse range of toxic species and, thus, its mixotrophic ability should be considered when studying red tide dynamics, food webs, and dinoflagellate evolution.     

DNA barcoding species in Alexandrium tamarense complex using ITS and proposing designation of five species

Alexandrium species can be very difficult to identify, with A. catenella, A. tamarense, and A. fundyense that compose “Alexandrium tamarense species complex” (Atama complex) as a distinct example. DNA barcoding is promising to offer a solution but remains to be established. In this study, we examined the utility of ITS in resolving the Atama species complex, by analyzing previously studied strains plus unstudied Chinese strains within the LSU- and SSU-rDNA based group/clade frameworks recently established. We further investigated the presence of intragenomic polymorphism and its implications in species delimitation. Similar to the previous SSU and LSU results, our ITS-based phylogenies divided the complex to five clusters, but with longer and evener branch lengths between the clusters. Based on the ITS region, the inter-cluster genetic distances (p = 0.134–0.216) were consistently and substantially greater than intra-cluster genetic distances (p = 0.000–0.066), with an average inter-cluster (species) distance (p = 0.167) 7.6-fold of the average intraspecific difference (p = 0.022), qualifying the approximately 510–520 bp ITS as a DNA barcode for Atama complex. We detected varying levels of intragenomic polymorphism in ITS but found that this did not impact the taxon-resolving power of this gene. With this DNA barcode, the new East and South China Sea strains and one Antarctic strain were placed in Clade IIC/Group IV, even though there were 7–10 polymorphic sites in their ITS, in contrast to none in SSU. Furthermore, our results suggest that the five clusters are recognizable as distinct species according to the phylogenetic species concept. Based on the phylogenetic placements of the type-locality strains of the existing three morphospecies and the dominant localities of other strains, we propose that Group I/Clade I be designated as A. fundyense, Group III/Clade IIB as A. tamarense, Group IV/Clade IIC as A. catenella, Group II/Clade IIA as A. mediterranis, and Group V/Clade IID as A. australis.     

Genome size stability among five subspecies of Pinus nigra Arnold s.l.

Despite the fact that genome size should be constant at species level, many reports of intraspecific variations exist. Thus, we carried out an analysis to determine the possible existence of nuclear DNA content variation in European black pine (Pinus nigra s.l.), a good model for such a study given its karyological uniformity, morphological polymorphism, broad geographical distribution, ecological plasticity and taxonomic heterogeneity. The panel comprised 20 populations across the natural range of P. nigra from Europe, Northwest Africa and Asia Minor including five subspecies: subsp. nigra, salzmanni, dalmatica, pallasiana and mauretanica. Mean 1C DNA content of the species was 23.62 pg (±0.209) assessed by flow cytometry. This converts to 23.1 G base pairs. The coefficients of variation within and between populations did not exceed 2.6%. Although we had already reported the existence of significant differences for three Black pine populations in our previous work on five Pinus spp. [Bogunic, F., Muratovic, E., Brown, S.C., Siljak-Yakovlev, S., 2003. Genome size of five Pinus from Balkan region. Plant Cell Rep. 22, 59–63], intraspecific variation was not confirmed in the present study dealing with many more populations. Subspecific divisions of Black pine were characterised with following mean values: subsp. pallasiana—23.80 pg, dalmatica—23.79 pg, nigra—23.65 pg, salzmanni—23.55 pg, and mauretanica—23.24 pg. A positive relationship between genome size and longitude was observed (r = 0.44, p < 0.05). We conclude that the diversification of populations of P. nigra has occurred without significant genome size changes throughout its wide geographical range from ecologically contrasting habitats. A clinal mode of genome size variation is present, in line with hypothesis of P. nigra spreading from south-western Asia towards European habitats.     

Dispersal pattern of airborne emissions from an aluminium smelter in Ouro Preto,Brazil, as expressed by foliar fluoride accumulation in eight plant species

In order to evaluate the dispersal pattern of airborne fluoride emissions, from a single source in the city of Ouro Preto, Brazil, the fluoride impact on some herbaceous plant species was studied using the plants as passive bioindicators. Foliar fluoride contents of eight species collected at different distances from an aluminium smelter were analyzed. The plant species were: Baccaharis dracunculifolia, Bidens pilosa, Borreria verticillata, Calopogonium mucunoides, Erigeron bonariensis, Hedychium coronarium, Ipomoea purpurea and Ipomoea cairica. In all species the fluoride accumulation decreased exponentially with the distance from the emission source. There was specific and distinct variation in fluoride accumulation among the species, a group of high-accumulator species (B. dracunculifolia and Bidens pilosa) and a group of low-accumulator species (I. cairica, H. coronarium and Borreria verticillata). C. mucunoides and E. bonariensis occupied an intermediate position. There was a pattern of plant contamination response during the periods analyzed. The plants nearest to the emission source, between 0.4 km northwest and 1.1 km east, showed fluoride contamination traits in leaves reaching values between 100 and 500 μg g⁻¹. Moreover, fluoride contents higher than 1000 μg g⁻¹ were found in these plants. At the most distant stations, situated 2.9 km northwest and 6 km east from the factory, the fluoride content of the dry matter was less than 10 μg g⁻¹ showing that plants at those distances were submitted to minimum contamination. There were different patterns of tolerance among the species analyzed. While B. dracunculifolia accumulated fluoride up to 1500 μg g⁻¹ in dry matter without any signs of injury, Borreria verticillata showed severe necrosis in leaves, but the fluoride content found was not higher than 120 μg g⁻¹.     

Does salt stress increase the ability of the exotic legume Acacia longifolia to compete with native legumes in sand dune ecosystems?

Sand dune ecosystems are one of the areas most affected by the introduction of invasive species which represents a threat for biodiversity conservation. Their invasion patterns and spread may depend on their salinity tolerance, besides other factors. To test this hypothesis, we investigated the effects of salt stress on seed germination and on the activity of antioxidant enzymes (catalase, CAT; ascorbate peroxidase, APX; peroxidase, POX; and glutathione reductase, GR) in two legume species, an invasive, Acacia longifolia (Andrews.) Willd., and a native, Ulex europaeus (L.), very common in the sand dunes of the coast of Portugal. Salt stress was induced by adding NaCl at different concentrations, 0, 50, 100 and 200 mM, for 15 days. Results showed that the highest germination percentages were obtained in distilled water (control) and that, with increasing salt concentration, seed germination was delayed and decreased in both species. Inhibition of germination was higher in the native species, only 3% of seeds germinated at 100 mM and no seeds germinated at 200 mM NaCl. In the invasive species, the reduction was higher at 200 mM NaCl (16%). Considering the coefficient of germination velocity, a decrease in both species with increasing NaCl concentration was observed. The CAT and GR activities decreased in A. longifolia with increasing salinity. In turn, APX activity significantly increased as NaCl concentration increased while the POX activities declined at the highest NaCl concentration. On the other hand, at 50 mM NaCl lower activity of CAT and APX and higher GR and POX were found in U. europaeus. In both species, protein content increased as NaCl concentration increased. In addition, it seems that APX activities play an essential role in the scavenging reactive oxygen species (ROS). These results suggest that the seeds of the invasive legume A. longifolia are more tolerant to salinity than the native legume U. europaeus, and seem better equipped to handle the physiological stress of high salinity, which may contribute to its invasive ability in sand dunes.     

Description of two new Drepanomonas taxa and an account on features defining species in Drepanomonas Fresenius, 1858 (Ciliophora,Microthoracida)

Using standard methods, we describe two new Drepanomonas taxa: Drepanomonas hymenofera (Horváth 1956) nov. comb., which is composed of two (biogeographical?) subspecies, viz., D. hymenofera venezuelensis nov. subspec. and D. hymenofera hymenofera (Horváth 1956), was discovered in soil from Venezuela and Iceland, respectively. Both are comparatively large-sized (50 × 20 μm and 40 × 18 μm in vivo), differing in the cortex pattern and the structure of kineties 3 and 4. We agree with Corliss (1979) and Chardez (1990) that the genus Pseudocristigera, which was established by Horváth (1956) for Drepanomonas hymenofera, is a junior synonym of Drepanomonas. Drepanomonas vasta nov. spec., which was discovered in the mud of a tree hole in Austria, is a middle-sized species (35 × 18 μm) with thick body, wide left side ridges, a single anterior dikinetid in kinety 4, and an average of 99 basal bodies; it is unique in having the dorsal side much more flattened than the ventral side, thus being cuneate in transverse view. Ontogenetic data show that the ciliary pattern of Drepanomonas is homologous to that of Leptopharynx, specifically, the structure and origin of the postoral complex. Main features for distinguishing Drepanomonas species are discussed.     

High genetic differentiation revealed by RAPD analysis of narrowly endemic Sinocalycanthus chinensis Cheng et S.Y. Chang,an endangered species of China

Genetic diversity and genetic differentiation of narrowly endemic Sinocalycanthus chinensis Cheng et S.Y. Chang, an endangered species of China, were analyzed using random amplified polymorphic DNA (RAPD) markers. Totally, 165 stable and clearly scored RAPD bands were achieved from 12 primers. The genetic diversity of S. chinensis was high (P% = 68.84; h = 0.2421 ± 0.1978; I = 0.3615 ± 0.2789), whereas that at the population level was relatively low (P% = 14.49; h = 0.0578 ± 0.0167; I = 0.0843 ± 0.0236). High genetic differentiation among populations was detected based on Shannon's information index (0.7668), Nei's gene diversity (0.7613) and AMOVA (0.8183). This might be explained by its survival in refugia during the last glaciation in southeastern China with origin from a widespread continental progenitor. The 10 populations from different geographical sites could be clustered into two groups. Low gene flow due to mixed mating system and anthropogenic activities likely played important roles in shaping the population genetic structure of the species.     

Differential interactions between the nematocyst-bearing mixotrophic dinoflagellate Paragymnodinium shiwhaense and common heterotrophic protists and copepods: Killer or prey

To investigate interactions between the nematocyst-bearing mixotrophic dinoflagellate Paragymnodinium shiwhaense and different heterotrophic protist and copepod species, feeding by common heterotrophic dinoflagellates (Oxyrrhis marina and Gyrodinium dominans), naked ciliates (Strobilidium sp. approximately 35 μm in cell length and Strombidinopsis sp. approximately 100 μm in cell length), and calanoid copepods Acartia spp. (A. hongi and A. omorii) on P. shiwhaense was explored. In addition, the feeding activities of P. shiwhaense on these heterotrophic protists were investigated. Furthermore, the growth and ingestion rates of O. marina, G. dominans, Strobilidium sp., Strombidinopsis sp., and Acartia spp. as a function of P. shiwhaense concentration were measured. O. marina, G. dominans, and Strombidinopsis sp. were able to feed on P. shiwhaense, but Strobilidium sp. was not. However, the growth rates of O. marina, G. dominans, Strobilidium sp., and Strombidinopsis sp. feeding on P. shiwhaense were very low or negative at almost all concentrations of P. shiwhaense. P. shiwhaense frequently fed on O. marina and Strobilidium sp., but did not feed on Strombidinopsis sp. and G. dominans. G. dominans cells swelled and became dead when incubated with filtrate from the experimental bottles (G. dominans + P. shiwhaense) that had been incubated for one day. The ingestion rates of O. marina, G. dominans, and Strobilidium sp. on P. shiwhaense were almost zero at all P. shiwhaense concentrations, while those of Strombidinopsis sp. increased with prey concentration. The maximum ingestion rate of Strombidinopsis sp. on P. shiwhaense was 5.3 ng C predator⁻¹d⁻¹ (41 cells predator⁻¹d⁻¹), which was much lower than ingestion rates reported in the literature for other mixotrophic dinoflagellate prey species. With increasing prey concentrations, the ingestion rates of Acartia spp. on P. shiwhaense increased up to 930 ng C ml⁻¹ (7180 cells ml⁻¹) at the highest prey concentration. The highest ingestion rate of Acartia spp. on P. shiwhaense was 4240 ng C predator⁻¹d⁻¹ (32,610 cells predator⁻¹d⁻¹), which is comparable to ingestion rates from previous studies on other dinoflagellate prey species calculated at similar prey concentrations. Thus, P. shiwhaense might play diverse ecological roles in marine planktonic communities by having an advantage over competing phytoplankton in anti-predation against potential protistan grazers.     

The phytoremediation potential for strontium of indigenous plants growing in a mining area

This study investigated the distribution and accumulation of strontium (Sr) in the shoots and roots of Euphorbia macroclada (EU), Verbascum cheiranthifolium (VR), and Astragalus gummifer (AS), with respect to their potential use in phytoremediation. Plant samples and their associated soils were collected from the arid and semi-arid Keban mining area and were analyzed inductively by ICP-MS for Sr. Mean Sr values in the shoots, roots and soil were, respectively, 453, 243 and 398 mg kg^?1 for E. macroclada; 149, 106 and 398 mg kg^?1 for V. cheiranthifolium; and 278, 223 and 469 mg kg^?1 for A. gummifer. The enrichment factors for root (ECR) and shoot (ECS) of these plants were lower than 1 or close to 1, except for the shoot of E. macroclada. The mean translocation factors (TLF) of these plants were higher than 1 and 2.08 for E. macroclada, 1.47 for V. cheiranthifolium, 1.18 for A. gummifer. It thus appeared that the shoots of these plants can be an efficient bioaccumulator plant for Sr and it can be used in cleaning or rehabilitating of the contaminated soil and areas by Sr because of their high translocation factors.     

Construction of recombinant Escherichia coli for enhanced bioconversion of colchicine into 3-demethylated colchicine at 70 l bioreactor level

A recombinant strain of Escherichia coli with CYP102A1 gene was developed for the demethylation of colchicine into their derivatives. The CYP102A1 gene responsible for demethylation was isolated from Bacillus megaterium ACBT03 and amplified using suitable primers. The amplified product was cloned into pET28a+ expression vector using host E. coli BL21(DE3) cells. The CYP3A4 (product of CYP102A1 gene) protein expression and other parameters like substrate toxicity, product toxicity and enzyme activity were optimized in shake flasks; and further scaled-up to 5 l bioreactor with 3 l working volume. In 5 l bioreactor, dissolved oxygen (DO) was optimized for maximum specific growth and enhanced 3-demethylated colchicine (3-DMC) production. The optimized conditions from shake flasks were scaled-up to 70 l bioreactor and resulted into ∼80% conversion of 20 mM colchicine in 48 h with a volumetric productivity of 6.62 mg l⁻¹ h⁻¹. Scale-up factors were measured as volumetric oxygen transfer coefficient (k_La) i.e., 56 h⁻¹ and impeller tip velocity (V_tip) i.e., 7.065 m s⁻¹, respectively. The kinetic parameters K_m, k_cat, and k_cat/K_m of the CYP3A4 enzyme using colchicine as the substrate were determined to be 271 ± 30 μM, 8533 ± 25 min⁻¹, and 31.49 μM min⁻¹, respectively, when IPTG induced recombinant E. coli culture was used.     

Determination of genetic diversity among Saccharina germplasm using ISSR and RAPD markers

Various species of genus Saccharina are economically important brown macroalgae cultivated in China. The genetic background of the conserved Saccharina germplasm was not clear. In this report, DNA-based molecular markers such as inter simple sequence repeats (ISSR) and random amplified polymorphic DNA (RAPD) were used to assess the genetic diversity and phylogenetic relationships among 48 Saccharina germplasms. A total of 50 ISSR and 50 RAPD primers were tested, of which only 33 polymorphic primers (17 ISSR and 16 RAPD) had an amplified clear and reproducible profile, and could be used. Seventeen ISSR primers yielded a total of 262 bands, of which 256 were polymorphic, and 15.06 polymorphic bands per primer were amplified from 48 kelp gametophytes. Sixteen RAPD primers produced 355 bands, of which 352 were polymorphic, and 22 polymorphic bands per primer were observed across 48 individuals. The simple matching coefficient of ISSR, RAPD and pooled ISSR and RAPD dendrograms ranged from 0.568 to 0.885, 0.670 to 0.873, and 0.667 to 0.862, revealing high genetic diversity. Based on the unweighted pair group method with the arithmetic averaging algorithm (UPGMA) cluster analysis and the principal components analysis (PCA) of ISSR data, the 48 gametophytes were divided into three main groups. The Mantel test revealed a similar polymorphism distribution pattern between ISSR and RAPD markers, the correlation coefficient r was 0.62, and the results indicated that both ISSR and RAPD markers were effective to assess the selected gametophytes, while matrix correlation of the ISSR marker system (r = 0.78) was better than that of the RAPD marker system (r = 0.64). Genetic analysis data from this study were helpful in understanding the genetic relationships among the selected 17 kelp varieties (or lines) and provided guidance for molecular-assisted selection for parental gametophytes of hybrid kelp breeding.     

Alkaliphilus serpentinus sp. nov. and Alkaliphilus pronyensis sp. nov., two novel anaerobic alkaliphilic species isolated from the serpentinite-hosted Prony Bay Hydrothermal Field (New Caledonia)

Two novel anaerobic alkaliphilic strains, designated as LacT^T and LacV^T, were isolated from the Prony Bay Hydrothermal Field (PBHF, New Caledonia). Cells were motile, Gram-positive, terminal endospore-forming rods, displaying a straight to curved morphology during the exponential phase. Strains LacT^T and LacV^T were mesophilic (optimum 30 °C), moderately alkaliphilic (optimum pH 8.2 and 8.7, respectively) and halotolerant (optimum 2% and 2.5% NaCl, respectively). Both strains were able to ferment yeast extract, peptone and casamino acids, but only strain LacT^T could use sugars (glucose, maltose and sucrose). Both strains disproportionated crotonate into acetate and butyrate. Phylogenetic analysis revealed that strains LacT^T and LacV^T shared 96.4% 16S rRNA gene sequence identity and were most closely related to A. peptidifermentans Z-7036, A. namsaraevii X-07-2 and A. hydrothermalis FatMR1 (95.7%–96.3%). Their genome size was of 3.29 Mb for strain LacT^T and 3.06 Mb for strain LacV^T with a G + C content of 36.0 and 33.9 mol%, respectively. The ANI value between both strains was 73.2 %. Finally, strains LacT^T (=DSM 100337 = JCM 30643) and LacV^T (=DSM 100017 = JCM 30644) are proposed as two novel species of the genus Alkaliphilus, order Clostridiales, phylum Firmicutes, Alkaliphilus serpentinus sp. nov. and Alkaliphilus pronyensis sp. nov., respectively. The genomes of the three Alkaliphilus species isolated from PBHF were consistently detected in the PBHF chimney metagenomes, although at very low abundance, but not significantly in the metagenomes of other serpentinizing systems (marine or terrestrial) worldwide, suggesting they represent indigenous members of the PBHF microbial ecosystem.     

Isolation and identification of gastrointestinal microbiota from the short-nosed fruit bat Cynopterus brachyotis brachyotis

Studies on the microbial ecology of gut microbiota in bats are limited and such information is necessary in determining the ecological significance of these hosts. Short-nosed fruit bats (Cynopterus brachyotis brachyotis) are good candidates for microbiota studies given their close association with humans in urban areas. Thus, this study explores the gut microbiota of this species from Peninsular Malaysia by means of biochemical tests and 16S rRNA gene sequences analysis. The estimation of viable bacteria present in the stomach and intestine of C. b. brachyotis ranged from 3.06 × 10¹⁰ to 1.36 × 10¹⁵ CFU/ml for stomach fluid and 1.92 × 10¹⁰ to 6.10 × 10¹⁵ CFU/ml for intestinal fluid. A total of 34 isolates from the stomach and intestine of seven C. b. brachyotis were retrieved. A total of 16 species of bacteria from eight genera (Bacillus, Enterobacter, Enterococcus, Escherichia, Klebsiella, Pantoea, Pseudomonas and Serratia) were identified, Enterobacteriaceae being the most prevalent, contributing 12 out of 16 species isolated. Most isolates from the Family Enterobacteriaceae have been reported as pathogens to humans and wildlife. With the possibility of human wildlife transmission, the findings of this study focus on the importance of bats as reservoirs of potential bacterial pathogens.