Morphological Evolution: By Any Means Necessary?

Recent debate has focused on the role of cis-regulatory mutations in the evolution of genes controlling morphology. Identification of the molecular basis of naturally occurring variation in leaf hair (trichome) density in Arabidopsis, combined with earlier work in the same system, sheds light on this debate. © 2009 Elsevier Ltd. All rights reserved

Why do plants need so many cyclin-dependent kinase inhibitors?

© 2017 Taylor & Francis Group, LLC. Cell cycle regulation is fundamental to growth and development, and Cyclin-Dependent Kinase Inhibitors (CKIs) are major negative regulators of the cell cycle. Plant genomes encode substantially more CKIs than metazoan or fungal genomes. Plant CKIs fall into 2 distinct families, KIP-RELATED PROTEINS (KRPs) and SIAMESE-RELATED proteins (SMRs). SMRs can inhibit both S-phase and M-phase CDK complexes in vitro and are transcribed throughout the cell cycle, yet SMRs do not inhibit DNA replication in vivo. This suggests that SMRs must be activated post transcriptionally after the start of S-phase, but the mechanism of this hypothesized activation is unknown. Recent work indicates that even distantly related SMRs have the same biochemical function, and that differential transcriptional regulation likely maintains their distinct roles in integrating various environmental and developmental signals with the cell cycle

A Tale of Two Cycles

© 2018 Elsevier Inc. Two of the fundamental rhythms of eukaryotic life are the circadian clock and the cell division cycle. In this issue of Developmental Cell, Fung-Uceda and colleagues (2018) have elucidated a molecular mechanism linking the circadian clock to the cell cycle in the plant Arabidopsis thaliana. Two of the fundamental rhythms of eukaryotic life are the circadian clock and the cell division cycle. In this issue of Developmental Cell, Fung-Uceda and colleagues (2018) have elucidated a molecular mechanism linking the circadian clock to the cell cycle in the plant Arabidopsis thaliana

Making plants break a sweat: The structure, function, and evolution of plant salt glands

© 2017 Dassanayake and Larkin. Salt stress is a complex trait that poses a grand challenge in developing new crops better adapted to saline environments. Some plants, called recretohalophytes, that have naturally evolved to secrete excess salts through salt glands, offer an underexplored genetic resource for examining how plant development, anatomy, and physiology integrate to prevent excess salt from building up to toxic levels in plant tissue. In this review we examine the structure and evolution of salt glands, salt gland-specific gene expression, and the possibility that all salt glands have originated via evolutionary modifications of trichomes. Salt secretion via salt glands is found in more than 50 species in 14 angiosperm families distributed in caryophyllales, asterids, rosids, and grasses. The salt glands of these distantly related clades can be grouped into four structural classes. Although salt glands appear to have originated independently at least 12 times, they share convergently evolved features that facilitate salt compartmentalization and excretion. We review the structural diversity and evolution of salt glands, major transporters and proteins associated with salt transport and secretion in halophytes, salt gland relevant gene expression regulation, and the prospect for using new genomic and transcriptomic tools in combination with information from model organisms to better understand how salt glands contribute to salt tolerance. Finally, we consider the prospects for using this knowledge to engineer salt glands to increase salt tolerance in model species, and ultimately in crops

Estimating the degree of saturation in mutant screens

Large-scale screens for loss-of-function mutants have played a significant role in recent advances in developmental biology and other fields. In such mutant screens, it is desirable to estimate the degree of saturation of the screen (i.e., what fraction of the possible target genes has been identified). We applied Bayesian and maximum-likelihood methods for estimating the number of loci remaining undetected in large-scale screens and produced credibility intervals to assess the uncertainty of these estimates. Since different loci may mutate to alleles with detectable phenotypes at different rates, we also incorporated variation in the degree of mutability among genes, using either gamma-distributed mutation rates or multiple discrete mutation rate classes. We examined eight published data sets from large-scale mutant screens and found that credibility intervals are much broader than implied by previous assumptions about the degree of saturation of screens. The likelihood methods presented here are a significantly better fit to data from published experiments than estimates based on the Poisson distribution, which implicitly assumes a single mutation rate for all loci. The results are reasonably robust to different models of variation in the mutability of genes. We tested our methods against mutant allele data from a region of the Drosophila melanogaster genome for which there is an independent genomics-based estimate of the number of undetected loci and found that the number of such loci falls within the predicted credibility interval for our models. The methods we have developed may also be useful for estimating the degree of saturation in other types of genetic screens in addition to classical screens for simple loss-of-function mutants, including genetic modifier screens and screens for protein-protein interactions using the yeast two-hybrid method

Arabidopsis \u3ci\u3eGLABROUS1\u3c/i\u3e Gene Requires Downstream Sequences for Function

The Arabidopsis GLABROUSl (GL1) gene is a myb gene homolog required for the initiation of trichome development. In situ hybridiration revealed that the highest levels of GL1 transcripts were present in developing trichomes. In contrast, previous work had shown that putative promoter sequences from the 5‘ noncoding region of the GL1 gene directed the expression of a β-glucuronidase (GUS) reporter gene only in stipules. Deletion analysis of the 3’ noncoding region of GL1 has identified an enhancer that is essential for GL1 function. Sequences fmm the region containing the enhancer, in conjunction with GL1 upstream sequences, direct the expression of a GUS reporter gene in leaf primordia and developing trichomes in addition to stipules, indicating that the downstream enhancer is required for the normal expression pattern of GL1