Plant Lessons: Exploring ABCB Functionality Through Structural Modeling

In contrast to mammalian ABCB1 proteins, narrow substrate specificity has been extensively documented for plant orthologs shown to catalyze the transport of the plant hormone, auxin. Using the crystal structures of the multidrug exporters Sav1866 and MmABCB1 as templates, we have developed structural models of plant ABCB proteins with a common architecture. Comparisons of these structures identified kingdom-specific candidate substrate-binding regions within the translocation chamber formed by the transmembrane domains of ABCBs from the model plant Arabidopsis. These results suggest an early evolutionary divergence of plant and mammalian ABCBs. Validation of these models becomes a priority for efforts to elucidate ABCB function and manipulate this class of transporters to enhance plant productivity and quality

Natural growth rates in Antarctic krill (Euphausia superba): II. Predictive models based on food, temperature, body length, sex, and maturity stage

We used the instantaneous growth rate method to determine the effects of food, temperature, krill length, sex, and maturity stage on in situ summer growth of krill across the southwest Atlantic sector of the Southern Ocean. The main aims were to examine the separate effects of each variable and to generate a predictive model of growth based on satellite-derivable environmental data. Both growth increments in length on moulting (GIs) and daily growth rates (DGRs, mm d-1) ranged greatly among the 59 swarms, from 0.58–15% and 0.013–0.32 mm d-1. However, all swarms maintained positive mean growth, even those in the low chlorophyll a (Chl a) zone of the central Scotia Sea. Among a suite of indices of food quantity and quality, large-scale monthly Chl a values from SeaWiFS predicted krill growth the best. Across our study area, the great contrast between bloom and nonbloom regions was a major factor driving variation in growth rates, obscuring more subtle effects of food quality. GIs and DGRs decreased with increasing krill length and decreased above a temperature optimum of 0.5°C. This probably reflects the onset of thermal stress at the northern limit of krill’s range. Thus, growth rates were fastest in the ice edge blooms of the southern Scotia Sea and not at South Georgia as previously suggested. This reflects both the smaller size of the krill and the colder water in the south being optimum for growth. Males tended to have higher GIs than females but longer intermoult periods, leading to similar DGRs between sexes. DGRs of equivalent-size krill tended to decrease with maturity stage, suggesting the progressive allocation of energy toward reproduction rather than somatic growth. Our maximum DGRs are higher than most literature values, equating to a 5.7% increase in mass per day. This value fits within a realistic energy budget, suggesting a maximum carbon ration of ~20% d-1. Over the whole Scotia Sea/South Georgia area, the gross turnover of krill biomass was ~1% d-1

Auxin regulates adventitious root formation in tomato cuttings

Adventitious root (AR) formation is a critical developmental process in cutting propagation for the horticultural industry. While auxin has been shown to regulate this process, the exact mechanism and details preceding AR formation remain unclear. Even though AR and lateral root (LR) formation share common developmental processes, there are exist some differences that need to be closely examined at the cytological level. Tomato stem cuttings, which readily form adventitious roots, represent the perfect system to study the influence of auxin on AR formation and to compare AR and LR organogenesis.https://doi.org/10.1186/s12870-019-2002-

Processes and Procedures for Data Publication: A Case Study in the Geosciences

The Peer REview for Publication and Accreditation of Research Data in the Earth sciences (PREPARDE) project is a JISC and NERC funded project which aims to investigate the policies and procedures required for the formal publication of research data, ranging from ingestion into a data repository, through to formal publication in a data journal. It also addresses key issues arising in the data publication paradigm, including, but not limited to, issues related to how one peer reviews a dataset, what criteria are needed for a repository to be considered objectively trustworthy, and how datasets and journal publications can be effectively cross-linked for the benefit of the wider research community. PREPARDE brings together a wide range of experts in the research, academic publishing and data management fields both within the Earth Sciences and in the broader life sciences with the aim of producing general guidelines applicable to a wide range of scientific disciplines and data publication types. This paper provides details of the work done in the first half of the project; the project itself will be completed in June 2013

Seasonal nitrogen remobilization and the role of auxin transport in poplar trees

Seasonal nitrogen (N) cycling in Populus, involves bark storage proteins (BSPs) that accumulate in bark phloem parenchyma in the autumn and decline when shoot growth resumes in the spring. Little is known about the contribution of BSPs to growth or the signals regulating N remobilization from BSPs. Knockdown of BSP accumulation via RNAi and N sink manipulations were used to understand how BSP storage influences shoot growth. Reduced accumulation of BSPs delayed bud break and reduced shoot growth following dormancy. Further, 13N tracer studies also showed that BSP accumulation is an important factor in N partitioning from senescing leaves to bark. Thus, BSP accumulation has a role in N remobilization during N partitioning both from senescing leaves to bark and from bark to expanding shoots once growth commences following dormancy. The bark transcriptome during BSP catabolism and N remobilization was enriched in genes associated with auxin transport and signaling, and manipulation of the source of auxin or auxin transport revealed a role for auxin in regulating BSP catabolism and N remobilization. Therefore, N remobilization appears to be regulated by auxin produced in expanding buds and shoots that is transported to bark where it regulates protease gene expression and BSP catabolism

phot1 inhibition of ABCB19 primes lateral auxin fluxes in the shoot apex required for phototropism

It is well accepted that lateral redistribution of the phytohormone auxin underlies the bending of plant organs towards light. In monocots, photoreception occurs at the shoot tip above the region of differential growth. Despite more than a century of research, it is still unresolved how light regulates auxin distribution and where this occurs in dicots. Here, we establish a system in Arabidopsis thaliana to study hypocotyl phototropism in the absence of developmental events associated with seedling photomorphogenesis. We show that auxin redistribution to the epidermal sites of action occurs at and above the hypocotyl apex, not at the elongation zone. Within this region, we identify the auxin efflux transporter ATP-BINDING CASSETTE B19 (ABCB19) as a substrate target for the photoreceptor kinase PHOTOTROPIN 1 (phot1). Heterologous expression and physiological analyses indicate that phosphorylation of ABCB19 by phot1 inhibits its efflux activity, thereby increasing auxin levels in and above the hypocotyl apex to halt vertical growth and prime lateral fluxes that are subsequently channeled to the elongation zone by PIN-FORMED 3 (PIN3). Together, these results provide new insights into the roles of ABCB19 and PIN3 in establishing phototropic curvatures and demonstrate that the proximity of light perception and differential phototropic growth is conserved in angiosperm

Cellular efflux of auxin catalyzed by the Arabidopsis MDR/PGP transporter AtPGP1

Directional transport of the phytohormone auxin is required for the establishment and maintenance of plant polarity, but the underlying molecular mechanisms have not been fully elucidated. Plant homologs of human multiple drug resistance/P-glycoproteins (MDR/PGPs) have been implicated in auxin transport, as defects in MDR1 (AtPGP19) and AtPGP1 result in reductions of growth and auxin transport in Arabidopsis (atpgp1, atpgp19), maize (brachytic2) and sorghum (dwarf3). Here we examine the localization, activity, substrate specificity and inhibitor sensitivity of AtPGP1. AtPGP1 exhibits non-polar plasma membrane localization at the shoot and root apices, as well as polar localization above the root apex. Protoplasts from Arabidopsis pgp1 leaf mesophyll cells exhibit reduced efflux of natural and synthetic auxins with reduced sensitivity to auxin efflux inhibitors. Expression of AtPGP1 in yeast and in the standard mammalian expression system used to analyze human MDR-type proteins results in enhanced efflux of indole-3-acetic acid (IAA) and the synthetic auxin 1-naphthalene acetic acid (1-NAA), but not the inactive auxin 2-NAA. AtPGP1-mediated efflux is sensitive to auxin efflux and ABC transporter inhibitors. As is seen in planta, AtPGP1 also appears to mediate some efflux of IAA oxidative breakdown products associated with apical sites of high auxin accumulation. However, unlike what is seen in planta, some additional transport of the benzoic acid is observed in yeast and mammalian cells expressing AtPGP1, suggesting that other factors present in plant tissues confer enhanced auxin specificity to PGP-mediated transport. © 2005 Blackwell Publishing Ltd

Brachytic2/ZmABCB1 functions in IAA export from intercalary meristems

Dwarfism traits in Zea mays are regulated by multiple factors including the hormone auxin. Dwarf brachytic2 (br2) mutants harbour lesions in the gene encoding an orthologue of Arabidopsis thaliana ABCB1 which functions in auxin efflux out of meristematic regions in the shoot and root. br2 mesocotyls and coleoptiles exhibit reduced auxin transport. However, the dwarf stature of br2 derives from shortened lower internodes whilst the upper portion of the plant is completely normal. As such, it is counter-intuitive to attribute br2 dwarfism exclusively to reduced auxin export out of the shoot apex. Arabidopsis abcb1 mutants exhibit only minor reductions in auxin transport and plant height unless combined with mutations in the ABCB19 auxin transporter. Phylogenetic modelling analysis excludes the possibility that BR2 is more closely related to ABCB19 which has three more closely related orthologues in maize. BR2 is expressed in nodal meristems, and analyses of auxin transport and content indicate that BR2 function in these grass-specific tissues is analogous to ABCB1 function in the shoot and root apex of Arabidopsis. These results indicate that ABCB1/BR2 function is conserved between dicots and monocots, but also suggests that this function must be understood in the context of the segmental organization of grass plants