An SMC-like protein binds and regulates Caenorhabditis elegans condensins

Structural Maintenance of Chromosomes (SMC) family proteins participate in multisubunit complexes that govern chromosome structure and dynamics. SMC-containing condensin complexes create chromosome topologies essential for mitosis/meiosis, gene expression, recombination, and repair. Many eukaryotes have two condensin complexes (I and II); C. elegans has three (I, II, and the X-chromosome specialized condensin IDC) and their regulation is poorly understood. Here we identify a novel SMC-like protein, SMCL-1, that binds to C. elegans condensin SMC subunits, and modulates condensin functions. Consistent with a possible role as a negative regulator, loss of SMCL-1 partially rescued the lethal and sterile phenotypes of a hypomorphic condensin mutant, while over-expression of SMCL-1 caused lethality, chromosome mis-segregation, and disruption of condensin IDC localization on X chromosomes. Unlike canonical SMC proteins, SMCL-1 lacks hinge and coil domains, and its ATPase domain lacks conserved amino acids required for ATP hydrolysis, leading to the speculation that it may inhibit condensin ATPase activity. SMCL-1 homologs are apparent only in the subset of Caenorhabditis species in which the condensin I and II subunit SMC-4 duplicated to create the condensin IDC- specific subunit DPY-27, suggesting that SMCL-1 helps this lineage cope with the regulatory challenges imposed by evolution of a third condensin complex. Our findings uncover a new regulator of condensins and highlight how the duplication and divergence of SMC complex components in various lineages has created new proteins with diverse functions in chromosome dynamics

A scoping review of research funding for small-scale farmers in water scarce regions

Water scarcity is a global issue that disproportionately affects small-scale farmers in low- and middle-income countries (LMICs). Through geospatial analysis, we estimated that less than 37% of small-scale farms probably have irrigation in water scarce regions across LMICs, compared with 42% of non-small-scale farms. Through a literature synthesis assisted by machine learning, we then systematically mapped the existing research for on-farm interventions that improve the incomes or yields of small-scale farmers in water scarce regions. We mapped over 888 on-farm interventions used to combat water scarcity from 560 publications and showed a research bias towards yields rather than livelihoods. We found gaps in evidence for many commonly proposed solutions, including livestock management, digital technology and solutions to protect natural resources at the farm-level, such as buffer strips. Our findings can be used to set a funding agenda for research on the geographies that are most at risk of water scarcity and the interventions that most lack evidence

Missing emissions from post-monsoon agricultural fires in northwestern India: regional limitations of MODIS burned area and active fire products

A rising source of outdoor emissions in northwestern India is crop residue burning, occurring after the monsoon (kharif) and winter (rabi) crop harvests. In particular, post-monsoon rice residue burning, which occurs annually from October to November and is linked to increasing mechanization, coincides with meteorological conditions that enhance short-term air quality degradation. Here we examine the Global Fire Emissions Database (GFED), whose bottom-up emissions are based on the 500-m burned area product, MCD64A1, derived from Moderate Resolution Imaging Spectroradiometer (MODIS) observations. Using a household survey from 2016, we find that MCD64A1 tends to underestimate burned area in many surveyed villages, leading to poor representation of small, scattered fires and consequent spatial biases in model results. To more accurately allocate such small fires and resolve sub-village heterogeneity, we use an experimental hybrid MODIS-Landsat method (ModL2T) to map burned area at 30-m spatial resolution, which results in 44 ± 21% higher burned area than MCD64A1 and up to 105 ± 52% increase in dry matter emissions over GFEDv4s. In our validation and assessments, we find that ModL2T performs better relative to MCD64A1 in terms of bias and omission error, but may introduce commission error due to conflation of burning with harvest and still underestimate burned area due to Landsat's coarse temporal resolution (every 16 days). We conclude that while MODIS and Landsat provide more than two decades worth of observations, their spatio-temporal resolution is too coarse to overcome several region-specific challenges: small median landholding size (1–3 ha), quick harvest-to-sowing turnover period, prevalence of partial burning, and increasing haziness. To further constrain agricultural fire emissions in northwestern India and improve model estimates of associated public health impacts, integration of finer resolution imagery, as well as better understanding of the spatial patterns in burn rates, burn practices, and fuel loading, is requisite

Antagonism between substitutions in β-lactamase explains a path not taken in the evolution of bacterial drug resistance

CTX-M β-lactamases are widespread in Gram-negative bacterial pathogens and provide resistance to the cephalosporin cefotaxime but not to the related antibiotic ceftazidime. Nevertheless, variants have emerged that confer resistance to ceftazidime. Two natural mutations, causing P167S and D240G substitutions in the CTX-M enzyme, result in 10-fold increased hydrolysis of ceftazidime. Although the combination of these mutations would be predicted to increase ceftazidime hydrolysis further, the P167S/D240G combination has not been observed in a naturally occurring CTX-M variant. Here, using recombinantly expressed enzymes, minimum inhibitory concentration measurements, steady-state enzyme kinetics, and X-ray crystallography, we show that the P167S/D240G double mutant enzyme exhibits decreased ceftazidime hydrolysis, lower thermostability, and decreased protein expression levels compared with each of the single mutants, indicating negative epistasis. X-ray structures of mutant enzymes with covalently trapped ceftazidime suggested that a change of an active-site Ω-loop to an open conformation accommodates ceftazidime leading to enhanced catalysis. 10-μs molecular dynamics simulations further correlated Ω-loop opening with catalytic activity. We observed that the WT and P167S/D240G variant with acylated ceftazidime both favor a closed conformation not conducive for catalysis. In contrast, the single substitutions dramatically increased the probability of open conformations. We conclude that the antagonism is due to restricting the conformation of the Ω-loop. These results reveal the importance of conformational heterogeneity of active-site loops in controlling catalytic activity and directing evolutionary trajectories

Conservation Agriculture Benefits Indian Farmers, but Technology Targeting Needed for Greater Impacts

Rice and wheat production in the intensive, irrigated farming systems of the Indo-Gangetic Plains (IGP) is associated with significant negative environmental and health externalities. Conservation Agriculture (CA) has the potential to curb some of these externalities while enhancing farm income. However, farmer adoption of CA remains modest in the Indian IGP. The present study focuses on the constraints to adopting the major CA component, zero tillage (ZT). We examine whether ZT wheat is feasible for smallholders and the potential of technology targeting to realize faster and wider diffusion. Econometric models and machine learning algorithms were used to analyze remote sensing data and farm household data collected from the Indian states of Punjab and Bihar, two contrasting agrarian economies of the IGP. While farmer adoption was low among smallholders (owning <2 ha of land), the on-farm effects of ZT on variable cost reduction and yield and profit enhancement for smallholders are comparable to large farmers. We estimate the economic potential of technology targeting using an equilibrium displacement model. In the relatively developed state of Punjab, technology targeting based on landholding size does not appear to add substantive economic benefits. In Bihar, a less prosperous state with a dominance of smallholders in the population, technology targeting could markedly enhance economic surplus and reduce rural poverty

Reimagining the potential of Earth observations for ecosystem service assessments

The benefits nature provides to people, called ecosystem services, are increasingly recognized and accounted for in assessments of infrastructure development, agricultural management, conservation prioritization, and sustainable sourcing. These assessments are often limited by data, however, a gap with tremendous potential to be filled through Earth observations (EO), which produce a variety of data across spatial and temporal extents and resolutions. Despite widespread recognition of this potential, in practice few ecosystem service studies use EO. Here, we identify challenges and opportunities to using EO in ecosystem service modeling and assessment. Some challenges are technical, related to data awareness, processing, and access. These challenges require systematic investment in model platforms and data management. Other challenges are more conceptual but still systemic; they are byproducts of the structure of existing ecosystem service models and addressing them requires scientific investment in solutions and tools applicable to a wide range of models and approaches. We also highlight new ways in which EO can be leveraged for ecosystem service assessments, identifying promising new areas of research. More widespread use of EO for ecosystem service assessment will only be achieved if all of these types of challenges are addressed. This will require non-traditional funding and partnering opportunities from private and public agencies to promote data exploration, sharing, and archiving. Investing in this integration will be reflected in better and more accurate ecosystem service assessments worldwide

Regional differences in agricultural and socioeconomic factors associated with farmer household dietary diversity in India.

This paper investigated whether there are any regional-level differences in factors associated with farmer household dietary diversity using the Food Consumption Score (FCS), in two states of India: Haryana and Gujarat. Our results suggest that the factors associated with farmer household dietary diversity were region-specific, with diverse drivers across districts. For example, in Vadodara (Gujarat), farmers who had greater crop diversity and planted more cash crops had higher dietary diversity while large landholders in Bhavnagar (Gujarat) had higher dietary diversity. In Karnal (Haryana), more educated farmer households and those who cultivated large landholdings had higher dietary diversity while farmers in Bhiwani (Haryana) who were more educated and sold more crops to market had higher dietary diversity. Thus, factors associated with FCS differed even within the same state. These results suggest that in some regions of India, higher crop diversity and better education could improve farmer household dietary diversity. On the other hand, in some other regions, dietary diversity is best improved through the income generation pathway, where households that earn increased income from selling more crops were able to purchase more diverse food from markets. Our study suggests that the drivers of household dietary diversity across rural India are complex and heterogeneous; thus, future policies and programs to improve farmer household nutrition should be tailored considering regional differences in the factors associated with household nutrition