Mapping QTLs using a novel source of salinity tolerance from Hasawi and their interaction with environments in rice

Background

Salinity is one of the most severe and widespread abiotic stresses that affect rice production. The identification of major-effect quantitative trait loci (QTLs) for traits related to salinity tolerance and understanding of QTL × environment interactions (QEIs) can help in more precise and faster development of salinity-tolerant rice varieties through marker-assisted breeding. Recombinant inbred lines (RILs) derived from IR29/Hasawi (a novel source of salinity) were screened for salinity tolerance in the IRRI phytotron in the Philippines (E1) and in two other diverse environments in Senegal (E2) and Tanzania (E3). QTLs were mapped for traits related to salinity tolerance at the seedling stage.

Results

The RILs were genotyped using 194 polymorphic SNPs (single nucleotide polymorphisms). After removing segregation distortion markers (SDM), a total of 145 and 135 SNPs were used to construct a genetic linkage map with a length of 1655 and 1662 cM, with an average marker density of 11.4 cM in E1 and 12.3 cM in E2 and E3, respectively. A total of 34 QTLs were identified on 10 chromosomes for five traits using ICIM-ADD and segregation distortion locus (SDL) mapping (IM-ADD) under salinity stress across environments. Eight major genomic regions on chromosome 1 between 170 and 175 cM (qSES1.3, qSES1.4, qSL1.2, qSL1.3, qRL1.1, qRL1.2, qFWsht1.2, qDWsht1.2), chromosome 4 at 32 cM (qSES4.1, qFWsht4.2, qDWsht4.2), chromosome 6 at 115 cM (qFWsht6.1, qDWsht6.1), chromosome 8 at 105 cM (qFWsht8.1, qDWsht8.1), and chromosome 12 at 78 cM (qFWsht12.1, qDWsht12.1) have co-localized QTLs for the multiple traits that might be governing seedling stage salinity tolerance through multiple traits in different phenotyping environments, thus suggesting these as hot spots for tolerance of salinity. Forty-nine and 30 significant pair-wise epistatic interactions were detected between QTL-linked and QTL-unlinked regions using single-environment and multi-environment analyses.

Conclusions

The identification of genomic regions for salinity tolerance in the RILs showed that Hasawi possesses alleles that are novel for salinity tolerance. The common regions for the multiple QTLs across environments as co-localized regions on chromosomes 1, 4, 6, 8, and 12 could be due to linkage or pleiotropic effect, which might be helpful for multiple QTL introgression for marker-assisted breeding programs to improve the salinity tolerance of adaptive and popular but otherwise salinity-sensitive rice varieties.

     

Pigeonpea improvement: An amalgam of breeding and genomic research

In the past five decades, constant research has been directed towards yield improvement in pigeonpea resulting in the deployment of several commercially acceptable cultivars in India. Though, the genesis of hybrid technology, the biggest breakthrough, enigma of stagnant productivity still remains unsolved. To sort this productivity disparity, genomic research along with conventional breeding was successfully initiated at ICRISAT. It endowed ample genomic resource providing insight in the pigeonpea genome combating production constraints in a precise and speedy manner. The availability of the draft genome sequence with a large‐scale marker resource, oriented the research towards trait mapping for flowering time, determinacy, fertility restoration, yield attributing traits and photo‐insensitivity. Defined core and mini‐core collection, still eased the pigeonpea breeding being accessible for existing genetic diversity and developing stress resistance. Modern genomic tools like next‐generation sequencing, genome‐wide selection helping in the appraisal of selection efficiency is leading towards next‐generation breeding, an awaited milestone in pigeonpea genetic enhancement. This paper emphasizes the ongoing genetic improvement in pigeonpea with an amalgam of conventional breeding as well as genomic research.     

Soil Organic Carbon and Soil Physical Characteristics as Affected by Land Uses under Semiarid Irrigated Conditions

ABSTRACT

Rice-Wheat rotation is the dominant land use in the state of Punjab, resulting in over exploitation of ground water resources. Thus, it is necessary to evaluate other land uses that requires less water and are sustainable. The present investigation was planned with four land uses viz., fallow (FLU), rice-wheat (ALU), grasses (GLU) and pear (PLU) with respect to their effect on soil organic carbon and soil physical characteristics in surface and subsurface depth in district Ludhiana, Punjab. The soil organic carbon (SOC) content was higher by 10, 30.9 and 24.9% under rice-wheat, grasses, and pear than that under fallow. The grasses showed higher soil moisture characteristics curve (SMCC) and lower bulk density (Db) than that under rice-wheat. The larger mean weight diameter (MWD) were observed under pear, grasses and fallow than that under rice-wheat by 0.21, 0.51 and 0.41 mm, respectively. The saturated hydraulic conductivity (K_s) was higher in magnitude by 56.1, 55.4 and 28%, respectively under PLU, GLU and FLU over ALU. Of the evaluated land uses, pear and grasses proved to be more sustainable by retaining more moisture, maintaining better soil physical characteristics and SOC under semiarid irrigated conditions in the state on long term gradual response.     

Genotypic Variability in Biomass Protein and Nucleic Acids in Four Linum Species to Sodicity Stress

Differences in gas exchange parameters i.e. carbon exchange rate (CER), transpiration (Tr), water vapor conductance (g) were investigated, under a controlled environment, in a semi-dwarf (SD) Triticum aestivum line, its tall (TL) near isoline and the Payne (PA) variety characterized by small leaves. The plants were maintained in: (a) optimal substrate moisture condition (CTR); (b) salinized by watering with a 0.12 m NaCl solution (SLT); (c) water stressed by withholding waterings during a period of six days (STR); (d) stressed and salinized during the same period and with the same saline solution (S + S). CER and Tr were negatively affected by the stresses; SLT and S + S treatments had a higher WUE compared to their respective controls CTR and STR.
SD line had a better performance in terms of CER and WUE, particularly when water and salt stresses interacted. Leaf anatomy and assimilation/internal CO₂ concentration curves contributed to explaining the SD performance.     

The extent of genetic diversity among Vanilla species: Comparative results for RAPD and ISSR

Vanilla is a large genus of about 110 species in the orchid family (Orchidaceae), including the species Vanilla planifolia from which commercial vanilla flavoring is derived. Since most species of vanilla are considered rare and endangered there is an urgent need to conserve them through genetic analysis and propagation/conservation studies on this crop.The present study investigated the genetic diversity among nine leafy- and leaf-less Vanilla species employing 30 decamer RAPD primers and 10 ISSR primers. The species under study were diverse and displayed a range of variability (0–66% and 0–81% for RAPD and ISSR, respectively). A total of 154 RAPD polymorphic markers (83.24%, h = 0.378) and 93 ISSR polymorphic markers (86.11%, h = 0.363) were used to generate a genetic similarity matrix followed by the cluster analysis. Specific groupings were revealed by each cluster analysis with slight variation between two different markers. Among the nine species studied, V. planifolia, Vanilla aphylla and Vanilla tahitensis revealed very low level of variation within their collections, thus indicating a narrow genetic base. The large genetic distance of Vanilla andamanica from other species suggests its different origin. A close genetic affinity was observed between the pairs V. planifolia, V. tahitensis and Vanilla albida, V. aphylla. These are the first comparative results for RAPD and ISSR reporting inter-relationship among nine cultivated, wild and hybrid Vanilla species.     

Physiological Basis of Irrigation Scheduling for Seed Production in Egyptian Clover Syn. Berseem (Trifolium alexandrinum L.) Crop

A field experiment was conducted to find out the critical physiological stages of irrigation schedules inducing better growth, physiological efficiency and seed yield potential of berseem ( Trifolium alexandrinum L., Var. S-99-1). For this purpose eight irrigation treatments were made comprised of four treatments of three irrigation (W₁, W₂, W₃ and W₄), three treatments of four irrigation (W₅, W₇ and W₈) and one treatment of five irrigation (W₆) at various physiological stages i. e. regeneration, flower initiation, full bloom, seed initiation and advance seed development stage.
Thus based on the experimental results the physiological role of watering in berseem seed production could be discussed as:
With-holding of irrigation either at regeneration or at full bloom stage developed potential water stress in plants as indicated by high proline content of irrigation treatments — W₄, W₁ and W₇; and further brought out disturbance on the formation of carotene, synthesis of water soluble sugar and translocation of sugar towards reproductive organs during grain development stage. These stresses adversely affected the plant growth and flowering behaviour. The irrigation at seed initiation stage increased the seed yield. Continuous irrigation did not appear to be useful. Thus it can be concluded that irrigation at three critical physiological stages i. e. regeneration, full bloom and seed initiation was found to be essential for obtaining potential seed yield of berseem.     

STUDIES ON THE MANAGEMENT OF CARDIOPULMONARY EMBARRASSMENT DUE TO THIOPENTONE ANAESTHESIA IN THE EQUINE

Cardio pulmonary embarrassment was induced with thiopentone sodium in 35 healthy adult donkeys divided in to seven groups of five animals. “To effect” anaesthetic dose was (12.72 ± 0.69 mg/kg) which caused transient hypotension, tachycardia and hypoxemia. A stable fall in MAP 1. 6.77 ± 0.287 Kpa (50.78 ± 2.15 mmHg) and a flat EEG were considered to indicate acute circulatory insufficiency due to thiopentone overdose.     

Embryo transfer: a discussion on its potential for infectious disease control based on a review of studies on infection of gametes and early embryos by various agents

Studies on laboratory animals have shown that viruses vary as to whether or not they are transmissible by the gametes or are capable of passing through the zona pellucida and infecting the embryo.

Methods of studying early embryos for the presence of infectious agents include electron microscopy, immunocytochemistry and cell cultivation.

Determination that early bovine embryos do not become infected by certain agents might allow for easing of restrictions in the current import and export regulations for cattle embryos.

Embryo transfer could be used as a means of controlling or eliminating disease in a herd or flock if the causal agent does not infect the early embryo via the gametes or by penetrating the zona pellucida.

     

Pathology of Mycoplasma agalactiae induced granular vulvovaginitis (GVV) in goats.

Granular vulvovaginitis (GVV) was experimentally produced in female kids by topical application of M. agalactiae on the scarified vulvar mucosa. Grossly visible GVV lesions were seen in 25 out of 30 infected kids, yet all were positive for microscopic lesions. Microscope lesions that appeared by 7 days post infection (DPI) were comprised of stromal oedema, lymphocytic infiltration into the lamina propria and perivascular accumulation of a few lymphocytes. The lesions observed between 28 and 49 DPI were comparable to those of spontaneous cases (severe). The changes seen in kids euthanized between 56 to 70 DPI were suggestive of the chronic stage of the disease. M. agalactiae was reisolated from all the infected kids from 7 to 70 days after inoculation. The pathology and pathogenesis of this condition have been described and discussed.