Genetic mapping and QTL analysis for sugar yield-related traits in sugarcane

Genetic improvement of sugar content in sugarcane would benefit from the availability of sufficient DNA markers and a genetic map. Genetic linkage maps were constructed to identify quantitative trait loci (QTLs) for seedling brix (SB), brix (B), sucrose percent in juice (SUC), stalk number (SN), stalk length (SL), stalk diameter (SD), internodes (INT), number of green leaves (NGL), at three crop cycles across seven environments in a segregating population with 207 individuals derived from a bi-parental cross of sugarcane elite cultivars. Linkage analysis led to the construction of eight linkage groups (LGs) for Co86011 and sixteen LGs for CoH70. The combined length of the two linkage maps was 2606.77 cM distributed over 24 LGs. 31 QTLs were identified: 2 for SB, 7 for B, 6 for SUC, 4 for SN, 1 for SL, 3 for SD, 6 for INT and 2 for NGL at LOD scores ranging from 2.69 to 4.75. 7 QTLs (22 %) had stable effect across crop year and locations. Markers from parents were found to be associated with both positive and negative effect on all of the traits analyzed. The most important QTLs intervals identified in this study using single-dose marker, were qB2, qSUC2, qINT2 and qB2, qSUC2, qSL2, qINT2 located between SSR markers UGSM31₅₄₈ and UGSM31₆₄₉. These QTLs could be put into use in marker assisted breeding.     

Cost of regulations on US catfish farms

Understanding the economic effects of regulations on US aquaculture farms provides insights into which compliance costs create the greatest compliance burden on farms. This can further guide strategies to improve the efficiency of regulatory frameworks and potentially reduce on-farm compliance costs while maintaining adequate oversight. This study estimated the regulatory compliance burden on US catfish farms as part of a national effort to quantify the cost of regulations on US aquaculture farms. Completed survey interviews of catfish farms in the major catfish-producing states covered 63% of the total US catfish production area. Total regulatory costs of the US catfish industry were estimated at $45 million annually. Lost farm revenues (measured as the value of lost production, the value of markets lost from regulations, and the value of business opportunities lost because of regulations) were estimated to be $35 million per annum. Catfish-producing states outside the Alabama/Arkansas/Mississippi region had the highest ($2856/ha) and Alabama the lowest ($1127/ha) regulatory costs per hectare among the surveyed states. The greatest regulatory cost burden on catfish farms ($18 million) was caused by environmental regulations related mostly to the management of federally protected piscivorous migratory birds, followed by labor regulations ($12 million), and taxes/insurance ($7 million). Regulatory costs ($/kg) were 2.6 times higher on smaller (<80 ha) farms relative to larger (>300 ha) farms. Attention is needed to identify alternative regulatory frameworks that provide the same degree of regulatory oversight but are more cost-efficient.     

Using a structural approach to identify relationships between soil and erosion in a semi-humid forested area, South India

Biogeochemical and hydrological cycles are currently studied on a small experimental forested watershed (4.5 km²) in the semi-humid South India. This paper presents one of the first data referring to the distribution and dynamics of a widespread red soil (Ferralsols and Chromic Luvisols) and black soil (Vertisols and Vertic intergrades) cover, and its possible relationship with the recent development of the erosion process. The soil map was established from the observation of isolated soil profiles and toposequences, and surveys of soil electromagnetic conductivity (EM31, Geonics Ltd), lithology and vegetation. The distribution of the different parts of the soil cover in relation to each other was used to establish the dynamics and chronological order of formation. Results indicate that both topography and lithology (gneiss and amphibolite) have influenced the distribution of the soils. At the downslope, the following parts of the soil covers were distinguished: i) red soil system, ii) black soil system, iii) bleached horizon at the top of the black soil and iv) bleached sandy saprolite at the base of the black soil. The red soil is currently transforming into black soil and the transformation front is moving upslope. In the bottom part of the slope, the chronology appears to be the following: black soil > bleached horizon at the top of the black soil > streambed > bleached horizon below the black soil. It appears that the development of the drainage network is a recent process, which was guided by the presence of thin black soil with a vertic horizon less than 2 m deep. Three distinctive types of erosional landforms have been identified:

1. rotational slips (Type 1);

2. a seepage erosion (Type 2) at the top of the black soil profile;

3. A combination of earthflow and sliding in the non-cohesive saprolite of the gneiss occurs at midslope (Type 3).

Types 1 and 2 erosion are mainly occurring downslope and are always located at the intersection between the streambed and the red soil-black soil contact. Neutron probe monitoring, along an area vulnerable to erosion types 1 and 2, indicates that rotational slips are caused by a temporary watertable at the base of the black soil and within the sandy bleached saprolite, which behaves as a plane of weakness. The watertable is induced by the ephemeral watercourse. Erosion type 2 is caused by seepage of a perched watertable, which occurs after swelling and closing of the cracks of the vertic clay horizon and within a light textured and bleached horizon at the top of black soil.Type 3 erosion is not related to the red soil–black soil system but is caused by the seasonal seepage of saturated throughflow in the sandy saprolite of the gneiss occurring at midslope.     

Investigation of Marine-Derived Natural Products as Raf Kinase Inhibitory Protein (RKIP)-Binding Ligands

Raf kinase inhibitory protein (RKIP) is an essential regulator of the Ras/Raf-1/MEK/ERK signaling cascade and functions by directly interacting with the Raf-1 kinase. The abnormal expression of RKIP is linked with numerous diseases including cancers, Alzheimer’s and diabetic nephropathy. Interestingly, RKIP also plays an indispensable role as a tumor suppressor, thus making it an attractive therapeutic target. To date, only a few small molecules have been reported to modulate the activity of RKIP, and there is a need to explore additional scaffolds. In order to achieve this objective, a pharmacophore model was generated that explores the features of locostatin, the most potent RKIP modulator. Correspondingly, the developed model was subjected to screening, and the mapped compounds from Marine Natural Products (MNP) library were retrieved. The mapped MNPs after ensuing drug-likeness filtration were escalated for molecular docking, where locostatin was regarded as a reference. The MNPs exhibiting higher docking scores than locostatin were considered for molecular dynamics simulations, and their binding affinity towards RKIP was computed via MM/PBSA. A total of five molecules revealed significantly better binding free energy scores than compared to locostatin and, therefore, were reckoned as hits. The hits from the present in silico investigation could act as potent RKIP modulators and disrupt interactions of RKIP with its binding proteins. Furthermore, the identification of potent modulators from marine natural habitat can act as a future drug-discovery source.     

Effect of understocking density of channel catfish fingerlings in intensively aerated multiple‐batch production

Multiple‐batch production is the most widely practiced method of raising channel catfish. Producers are increasingly adopting intensified production practices in multiple‐batch systems by increasing stocking density and aeration rates as a means to improve cost efficiencies. Proven stocking recommendations are required for the efficient implementation of recent developments in multiple‐batch production. Twelve 0.4‐ha ponds were understocked with 17,484, 20,612, and 26,124 fingerlings/ha (mean weight = 40 g/fish) over equal weights of carryover fish (0.46 kg/fish @ 4,589 kg/ha). Fish were fed once daily to apparent satiation with a 28% protein floating feed and aerated with a single 7.4‐kW electric paddlewheel aerator. Density‐dependent significant differences were absent for gross, net, daily net yields, marketable yields (≥0.54 kg), growth (g/day), and survival. Sub‐marketable yield (<0.54 kg) and feeding rate increased significantly with increased understocking density. Economic analysis revealed increased breakeven prices and diminished net returns with increased stocking density when sub‐marketable fish were not considered as revenue. These differences in production costs and profits among the three treatments became minimal when sub‐marketable fish were included as revenue. All three density treatments attained positive annual net cash flows. This study validates channel catfish understocking densities of 17,000–26,000 fish/ha to improve cost efficiency in intensively aerated, multiple‐batch production systems.