Genomics-assisted breeding in four major pulse crops of developing countries: present status and prospects

The global population is continuously increasing and is expected to reach nine billion by 2050. This huge population pressure will lead to severe shortage of food, natural resources and arable land. Such an alarming situation is most likely to arise in developing countries due to increase in the proportion of people suffering from protein and micronutrient malnutrition. Pulses being a primary and affordable source of proteins and minerals play a key role in alleviating the protein calorie malnutrition, micronutrient deficiencies and other undernourishment-related issues. Additionally, pulses are a vital source of livelihood generation for millions of resource-poor farmers practising agriculture in the semi-arid and sub-tropical regions. Limited success achieved through conventional breeding so far in most of the pulse crops will not be enough to feed the ever increasing population. In this context, genomics-assisted breeding (GAB) holds promise in enhancing the genetic gains. Though pulses have long been considered as orphan crops, recent advances in the area of pulse genomics are noteworthy, e.g. discovery of genome-wide genetic markers, high-throughput genotyping and sequencing platforms, high-density genetic linkage/QTL maps and, more importantly, the availability of whole-genome sequence. With genome sequence in hand, there is a great scope to apply genome-wide methods for trait mapping using association studies and to choose desirable genotypes via genomic selection. It is anticipated that GAB will speed up the progress of genetic improvement of pulses, leading to the rapid development of cultivars with higher yield, enhanced stress tolerance and wider adaptability

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)1.

In 2008, we published the first set of guidelines for standardizing research in autophagy. Since then, this topic has received increasing attention, and many scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Thus, it is important to formulate on a regular basis updated guidelines for monitoring autophagy in different organisms. Despite numerous reviews, there continues to be confusion regarding acceptable methods to evaluate autophagy, especially in multicellular eukaryotes. Here, we present a set of guidelines for investigators to select and interpret methods to examine autophagy and related processes, and for reviewers to provide realistic and reasonable critiques of reports that are focused on these processes. These guidelines are not meant to be a dogmatic set of rules, because the appropriateness of any assay largely depends on the question being asked and the system being used. Moreover, no individual assay is perfect for every situation, calling for the use of multiple techniques to properly monitor autophagy in each experimental setting. Finally, several core components of the autophagy machinery have been implicated in distinct autophagic processes (canonical and noncanonical autophagy), implying that genetic approaches to block autophagy should rely on targeting two or more autophagy-related genes that ideally participate in distinct steps of the pathway. Along similar lines, because multiple proteins involved in autophagy also regulate other cellular pathways including apoptosis, not all of them can be used as a specific marker for bona fide autophagic responses. Here, we critically discuss current methods of assessing autophagy and the information they can, or cannot, provide. Our ultimate goal is to encourage intellectual and technical innovation in the field

Insights into Insect Resistance in Pulse Crops: Problems and Preventions

Globally, insect pests cause considerable damage to pulse crops. Hence developing broad-spectrum resistance against insect pests has been a major challenge to pulse growers and scientists. Traditionally, cultural practices and synthetic insecticides are being utilized for effective control of insect pests since ages. Apart from these, other strategies such as host plant resistance, insect-resistant transgenic crops, and IPM are also being used to manage the infestation in pulse crops. Though screening of genetic resources for insect resistance has been promising in some pulse crops, fertility barriers and linkage drag minimize the effective utilization of identified resistance in commercially viable crop breeding programs. In parallel, insect-resistant transgenic plants have been developed using various insecticidal proteins from various sources including Bacillus thuringiensis endotoxin, plant protease inhibitors, chitinases, alpha-amylase inhibitors, secondary metabolites, and vegetative insecticidal proteins (VIPs). Deploying transgenic plants with high levels of toxin expression by gene pyramiding is another practical option to delay the resistance development in insects. Nevertheless, the success achieved so far in managing insect pests is limited mainly due to the complex mechanisms underlying the defense strategies together with the lack of precision in screening techniques. Here, we discuss the recent progress and current status of studies toward developing resistance to the most common insect pests of pulses. This chapter points the lack of detailed molecular studies exploring the insect resistance that can advance our knowledge on plant resistance mechanisms and the genes involved. Therefore, a step forward now will be on exploiting natural variations with novel technologies in combination of eco-safe management practices to develop durable insect-resistant pulse crops. Despite technical and regulatory difficulties, developing insect resistance should be the major priority area for future breeding and genetic engineering studies aiming at pulse crop improvement