Peptidomics and genomics analysis of novel antimicrobial peptides from the frog, Rana nigrovittata

Much attention has been paid on amphibian peptides for their wide-ranging pharmacological properties, clinical potential, and gene-encoded origin. More than 300 antimicrobial peptides (AMPs) from amphibians have been studied. Peptidomics and genomics analysis combined with functional test including microorganism killing, histamine-releasing, and mast cell degranulation was used to investigate antimicrobial peptide diversity. Thirty-four novel AMPs from skin secretions of Rana nigrovittata were identified in current work, and they belong to 9 families, including 6 novel families. Other three families are classified into rugosin, gaegurin, and temporin family of amphibian AMP, respectively. These AMPs share highly conserved preproregions including signal peptides and spacer acidic peptides, while greatly diversified on mature peptides structures. In this work, peptidomics combined with genomics analysis was confirmed to be an effective way to identify amphibian AMPs, especially novel families. Some AMPs reported here will provide leading molecules for designing novel antimicrobial agents. (C) 2009 Elsevier Inc. All rights reserved

Five novel antimicrobial peptides from skin secretions of the frog, Amolops loloensis

While investigating antimicrobial peptide diversity of Amolops loloensis, five novel antimicrobial peptides belonging to two families were identified from skin secretions of this frog. The first family including two members is esculentin-2-AL (esculentin-2-ALa and -ALb): the second family including three members is temporin-AL (temporin-ALd to -ALf). The family of esculentin-2-AL is composed of 37 amino acid residues (aa); the family of temporin-AL is composed of 16, 13 and 10 aa, respectively. All of these antimicrobial peptides showed antimicrobial activities against tested microorganisms. cDNAs encoding precursors of esculentin-2-ALs and temporin-ALs were cloned from the skin cDNA library of A. loloensis. All the precursors share similar overall structures. There is a typical prohormone processing signal (Lys-Arg) located between the acidic propiece and the mature peptide. The antimicrobial peptide family of esculentin-2 is firstly reported in the genus of Amolops. Combined with previous reports, a total of four antimicrobial peptide families have been identified from the genus of Amolops; three of them are also found in the genus of Rana. These results suggest the possible evolutionary connection between the genera Amolops and Rana. (C) 2009 Elsevier Inc. All rights reserved.

Constraints in fish farming practices in Uttar Pradesh, India: an analysis

Aquaculture can be considered as a rapidly growing sector in many Indian states including Uttar Pradesh. The impressive overall upward trend in fish production is likely to continue in future years as there are plenty of unutilized or underutilized fishery resources in the state. In spite of the growing popularity of aquaculture in the state, fish farmers have been experiencing financial, social and technical constraints in fish farming practices. These constraints are adversely affecting farmers in obtaining expected fish yields and income. In this study, the most common problem areas were identified, analysed and ranked on the basis of farmers' perception.

Socioeconomic assessment of shrimp farming in relation to local livelihoods in the south-west coastal Bangladesh

Nine different categories of stakeholders in shrimp farming industry ·were assessed to show the socioeconomic impact of shrimp farming in south-west Bangladesh. Among all the stakeholders the shrimp farmer's average own land was 4 ha whereas the seed collectors and faria's had lowest amount of average land, 0.1 and 0.5 ha respectively. The shrimp farming positively impacted to the livelihood of stakeholders. Income of the coastal people, sanitation, working facilities of women, employment, health condition and the literacy rate increased due to shrimp farming. On the other hand shrimp farming had negative impact on the rice production, livestock, drinking water supply, and social conflict and violence had increased due to shrimp farming. There were internal conflicts between different stakeholders; the farias conflict with the depot owners and shrimp farmers, marginal farmers' conflict with the rich shrimp farmers about leasing lands and saline water control, the rice farmers conflicts with the shrimp farmers about agricultural crop production.

Shifting rice farming to fish culture in some selected areas of Mymensingh, Bangladesh: the process, conflicts and impacts

The evolutionary process of converting low-lying paddy fields into fish farms and its impact on agrarian communities in some selected areas of Mymensingh district were studied. This study was conducted through participatory rural appraisal (PRA) covering 12 villages from each of selected upazillas viz. Fulpur and Haluaghat of Mymensing [sic] district. A total of 12 PRA sessions were conducted where 90 farmers participated during 29 July to 26 August 2004. It is seen that the use of low-lying paddy fields was mostly confined to Broadcast Aman (B. Aman) rice production until 1960s. With the introduction of modern rice farming technology, the farmers started to produce Boro rice in Rabi season and B. Aman rice in Kharif season. With the passage of time, aquaculture technologies have been evolved and the farmers realized that fish farming is more profitable than rice cultivation, and then they started to utilize their paddy fields for alternate rice-fish farming and rice-cum-fish farming. Now a days, aquaculture based crop production system is in practice in more than 25% of the low-lying paddy fields. Conversion of rice fields in to fish ponds has brought up a change in the livelihood patterns of the rural farmers. The areas where the farmers involved themselves in the new production systems were fingerling collection, transportation and marketing of fry and fingerlings. During 1960s to 1970s, a few people used to culture fish in the permanent ponds for their own consumption, the species produced were rohu, catla, mrigal, ghainna, long whiskered catfish, freshwater shark (boal), snake head (shol) etc. Small fishes like climbing perch, stinging catfish, walking catfish, barb, minnows etc. were available in the rice fields during monsoon season. In 1980s to mid 1990s, some rice fields were converted into fish ponds and the people started to produce fish for commercial purposes. When rice-fish farming became profitable, a large number of people started converting their rice fields in to rice-fish culture ponds. Culture of some exotic fishes like silver carp, tilapia, grass carp, silver barb etc. also started in the paddy fields. Higher income from fish farming contributed positively in improving the housing, sanitation and education system in the study areas. It is seen that the medium and medium high lands were only used for alternate rice fish farming. The net income was high in any fish based cropping system that motivated the farmers to introduce fish based cropping system in the low-lying inland areas. As a result, the regional as well as communal income disparities occurred. However, the extraction of ground water became common during the dry period as the water was used for both rice and fish farming. Mass conversion of paddy fields into rice-fish culture ponds caused water logging in the study areas. In most cases, the participated farmers mentioned that they could be easily benefited by producing fish with T. Aman or only fish during the monsoon season. They agreed that this was an impressive technology to them and they could generate employment opportunities throughout the year. Finally, the social, economic and technical problems which are acting as constraints to rapid expansion of fish production system were reported from the interviewee.

Demonstration of some selected aquaculture technologies under farming system research in Jessore and Santahar, Bangladesh

BFRI evolved some selected aquaculture technologies viz. polyculture of carps in perennial ponds, monoculture of short cycled fish species (BFRI super strain) in seasonal ponds and prawn seed production through backyard hatchery system have been demonstrated under Farming System Research (FSR) component in Jessore and Santahar regions. Both polyculture of carps and monoculture of short cycled fish species technologies were tested in farmer's ponds in Kaium Kula village near Jessore town. In polyculture trials, seven species comprising of silver carp (Hypophthalmichthys molirrix), catla (Catla catla), rohu (Labeo rohita), grass carp (Ctenopharyngodon idellus), common carp (Cyprinus carpio), mrigal (Cirrhinus cirrhosus) and silver barb (Barbonymus gonionotus) were stocked @ 9,500 (ratio 6:2:4:2:1:5:5); 10,750 (ratio 6:2:4:2:1:5:5) and 12,000 (ratio 6:2:4:2:1:5:4) fish/ha respectively in ponds of T1, T2 and T3 having three replications of each. The mean highest fish production was 3,148 kg/ha in T3, followed by 2,899 kg/ha in T1 and 2,875 kg/ha in T2. Production of T3 was significantly different (P<0.05) than both T1 and T2, while there was no significant differences (P>0.05) between the production of T1 and T2. In case of trial of short cycled fish species, two treatments were tested: T1 (comprising of BFRI super strain of Nile tilapia, silver carp, common carp and silver barb; ratio 3:5:1:1) and T2 (having only BFRI super strain of Nile tilapia). Stocking density in both the treatments were same (20,000 fish/ha). In this trial average production was higher in T1 (2,743 kg/ha) than that of T2 (2,369 kg/ha) but the production figure in these two treatments was not significantly different (P>0.05). Demonstration of backyard prawn hatchery technology was tested at Santahar region of Bogra district, North-west part of Bangladesh. This hatchery consisted of three main components i) bio-filter, ii) rearing tank unit (chari) and iii) air blower/air pump unit. Plastic drum of 200-250 l capacity and cemented chari of 200-250 l capacity were used as bio-filter and larval rearing containers respectively. A 0.5 hp air blower with 6 aquarium air pump were used to operate the aeration system in the hatchery. Diluted sea water (10-12 ppt) made from brine solution (200-250 ppt) collected from salt-bed was used in the backyard hatchery system of hatching of eggs and rearing of larvae. Rearing of first stage zoea-larvae was reared in three rearing tanks following the stocking densities of 40, 50 and 60/l of water respectively. Production of post-larvae were 20±0.82, 22±1.12 and 28±1.63/liter of water in treatments I, II and III respectively in 38, 40 and 39 days rearing period.

Utilization of frog waste

Commercial frog waste samples have been converted into meals by cooking at 0.7 kg/sq. cm for 30 min, draining off the stick water and drying the press cake either in the sun, tunnel dryer under controlled conditions or hot air oven. Yield of the meal varied between 18.6 to 21.5% of the fresh frog waste. Chemical analyses of the meals have shown that the meals prepared from frog waste conform to standards prescribed for fish meal and livestock feed and can therefore be used for supplementation of poultry/animal feed.

Paraphyly of Chinese Amolops (Anura, Ranidae) and phylogenetic position of the rare Chinese frog, Amolops tormotus

In order to evaluate the five species groups of Chinese Amolops based on morphological characteristics, and to clarify the phylogenetic position of the concave-eared torrent frog Amolops tormotus, we investigated the phylogeny of Amolops by maximum parsim

Rapapport's broth, a better enrichment medium in the identification of Salmonella from processed frog legs

Live clams (Villorita cyprinoides) collected from their natural beds were packed in different ways like dry pack, tray pack, in oxygenated water (wet pack) and depurated samples in wet pack. It was found that the packaging in l kg lots in 200 gauge polythene bags with oxygen at a temperature of 20°C could keep them live for 4 days. In tray pack without oxygen and water they can be kept alive for 3 days at 20°C. Temperature seems to be the critical factor in the transportation of live clams. At room temperature both dry and wet pack can be kept for 24 h only. Depuration technique does not appear to be useful in prolonging the storage life of clams in live condition as percentage mortality is more at 48 h both at 20°C and room temperature compared to the non-depurated samples.

Phylogeny of the Asian spiny frog tribe Paini (Family Dicroglossidae) sensu Dubois

The anuran tribe Paini, family Dicroglossidae, is known in this group only from Asia. The phylogenetic relationships and often the taxonomic recognition of species are controversial. In order to stabilize the classification, we used approximately 2100bp o

Biology and farming of the green mussel Mytilus smaragdinus

Biological investigations were carried out in Sapian Bay, Capiz from November 1975 to December 1976 with samplings conducted fortnightly. Histological studies on the gonad reveal a high percentage of ripe and spent females during the month of April and May, and ripe to near ripe during November to December. However, larval counts were highest on February 25, 1976 with 253 mytilid larvae per haul compared to 0-79 per haul during all other months. The high larval count was followed by the highest spat settlement during the next sampling period two weeks later, with the spat collector set in the water during the February 25 sampling. The four materials tested, blue polypropylene fiber rope, black polypropylene fiber, and coir rope, all had their highest spat counts during this period with an average of 471 spats per standard 10 cm rope piece. The range during the other time periods is 2-283 spats. Of the 4 materials tested, the black fibrillated polypropylene film had the highest larval counts in 15 out of a total of 25 sampling periods. The blue rope was the poorest spat collector. Coconut husk was tested later on and it proved to have a very high catchability, with spats completely enveloping the husk surface. Growth monitored from one cohort in Sapian Bay averaged 10 mm per month. 50-60 mm is considered marketable size. Trial growth experiments with transplanted mussels were also conducted at Igang Bay in Guimaras Island, Makato River in Aklan, and a milkfish pond in Leganes, Iloilo. Survival in Igang was less than 50% after the second week, and the condition of the surviving mussels can be described only as 'watery' with the mantle completely transparent. Mortality was minimal in Makato but the growth rate was only 30% that of Sapian Bay. The pond experiments were terminated due to severe crab predation.

Year-round and rotational freshwater prawn, Macrobrachium rosenbergii and paddy farming: soil quality, production and economics

A study was carried out at five upazillas (Dumuria, Fakirhat, Pirojpur sadar, Gopalgonj sadar and Kalia) of five southern districts of Khulna, Bagerhat, Pirojpur, Gopalgonj and Narail to understand the comparative production performance and any effect on soil quality in case of year-round golda (Macrobrachium rosenbergii), alternate prawn-paddy and year-round paddy farming. A direct interview of 55 farmers was taken, using pretested questionnaire, and soil samples were taken from selected farms before and after each crop. Among the five upazillas, farmers in Gopalgonj sadar and Kalia are not practicing year-round golda. Rotational golda-paddy farming has been recorded to result in maximum profit, with the highest of Tk. 310,912/ha/year in 2003 at Dumuria. Only paddy farming is less profitable than other two cropping patterns, irrespective of study sites. The nutrient status of soil in rotational golda and paddy farming has been found improved, compared to that of only golda or paddy farming.

Environmental assessment of shrimp farming in relation to livelihoods in the south-west coastal Bangladesh

The study was designed to assess the environmental impact of shrimp farming and implications on local livelihoods at the south-west coastal area of Bangladesh. All the stakeholders reported that shrimp farming negatively affected on the environment at the coastal area. The soil and water, fish habitation, agricultural cropland, grazing land, indigenous fish, household vegetations, trees and plants, land fertility and mangroves are affected negatively by the shrimp farming in the coastal area. About 44% of stakeholders agreed that mangroves were destroyed by the extension of shrimp farming in the study area. In the case of positive impact of shrimp farming on environment about 16% of stakeholders agreed that the household vegetations increased due to alternate rice and shrimp-prawn farming.

Farming seaweeds at SEAFDEC/AQD

The article presents the practices that have been developed or documented by SEAFDEC Aquaculture Department for farming seaweeds. These practices are: the cage culture of Kappaphycus, and the ‘rice planting’ method for cultivating Gracilaria. The seaweed gathering practices in coastal communities in western Visayas is also presented.

Oyster and mussel farming

The article discusses the oyster and mussel culture practices in western Visayas, Philippines. Spat collection, culture methods and management, and harvesting technique are discussed. The article also discusses mussel culture in New Zealand.