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Article ; Online: Simultaneous multifunctional transcriptome engineering by CRISPR RNA scaffold.

Liu, Zukai / Jillette, Nathaniel / Robson, Paul / Cheng, Albert Wu

2023 Volume 51, Issue 14, Page(s) e77

Abstract: RNA processing and metabolism are subjected to precise regulation in the cell to ensure integrity and functions of RNA. Though targeted RNA engineering has become feasible with the discovery and engineering of the CRISPR-Cas13 system, simultaneous ... ...

Abstract	RNA processing and metabolism are subjected to precise regulation in the cell to ensure integrity and functions of RNA. Though targeted RNA engineering has become feasible with the discovery and engineering of the CRISPR-Cas13 system, simultaneous modulation of different RNA processing steps remains unavailable. In addition, off-target events resulting from effectors fused with dCas13 limit its application. Here we developed a novel platform, Combinatorial RNA Engineering via Scaffold Tagged gRNA (CREST), which can simultaneously execute multiple RNA modulation functions on different RNA targets. In CREST, RNA scaffolds are appended to the 3' end of Cas13 gRNA and their cognate RNA binding proteins are fused with enzymatic domains for manipulation. Taking RNA alternative splicing, A-to-G and C-to-U base editing as examples, we developed bifunctional and tri-functional CREST systems for simultaneously RNA manipulation. Furthermore, by fusing two split fragments of the deaminase domain of ADAR2 to dCas13 and/or PUFc respectively, we reconstituted its enzyme activity at target sites. This split design can reduce nearly 99% of off-target events otherwise induced by a full-length effector. The flexibility of the CREST framework will enrich the transcriptome engineering toolbox for the study of RNA biology.
MeSH term(s)	RNA/genetics ; CRISPR-Cas Systems/genetics ; Transcriptome ; RNA Processing, Post-Transcriptional ; RNA Splicing ; Gene Editing/methods
Chemical Substances	RNA (63231-63-0)
Language	English
Publishing date	2023-07-01
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	186809-3
ISSN	1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
ISSN (online)	1362-4962 ; 1362-4954
ISSN	0301-5610 ; 0305-1048
DOI	10.1093/nar/gkad547
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Article ; Online: Social innovation, goal orientation, and openness: insights from social enterprise hybrids.

Hagedoorn, John / Haugh, Helen / Robson, Paul / Sugar, Kate

Small business economics

2022 Volume 60, Issue 1, Page(s) 173–198

Abstract: We empirically examine social innovation and openness through a survey of social enterprise hybrids in the United Kingdom (UK). Social innovation refers to new products, processes, and services that respond to grand challenges. Social enterprises pursue ... ...

Abstract	We empirically examine social innovation and openness through a survey of social enterprise hybrids in the United Kingdom (UK). Social innovation refers to new products, processes, and services that respond to grand challenges. Social enterprises pursue economic, social, and environmental goals but vary in their goal orientation, namely the relative importance ascribed to such goals. We first explore the relationships between commercial, social, and environmental goal orientation and social innovation performance. Next, we consider the moderating impact of openness to external knowledge and ideas on social innovation performance. Our analysis finds positive and significant relationships between commercial and social goal orientation and social innovation performance, but no relationship with environmental goal orientation. In addition, the use of external sources of knowledge and ideas positively strengthens these relationships for both commercial and social goal orientation but not for environmental goal orientation. Our results reveal some important influences on social innovation, openness, and hybrid organizing.
Language	English
Publishing date	2022-07-01
Publishing country	United States
Document type	Journal Article
ZDB-ID	1478919-X
ISSN	1573-0913 ; 0921-898X
ISSN (online)	1573-0913
ISSN	0921-898X
DOI	10.1007/s11187-022-00643-4
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Article ; Online: Deciphering developmental processes from single-cell transcriptomes.

Robson, Paul

Developmental cell

2014 Volume 29, Issue 3, Page(s) 260–261

Abstract: Alveoli facilitate air-blood interchange in the lungs from birth to the last breath. Reporting in Nature, Treutlein et al. (2014) apply single-cell RNA sequencing to the developing mouse lung to address some of the unanswered questions surrounding the ... ...

Abstract	Alveoli facilitate air-blood interchange in the lungs from birth to the last breath. Reporting in Nature, Treutlein et al. (2014) apply single-cell RNA sequencing to the developing mouse lung to address some of the unanswered questions surrounding the embryonic origins of alveoli.
MeSH term(s)	Animals ; Cell Lineage/genetics ; Epithelial Cells/cytology ; Epithelial Cells/metabolism ; Female ; Lung/cytology ; Sequence Analysis, RNA/methods ; Single-Cell Analysis/methods
Language	English
Publishing date	2014-05-12
Publishing country	United States
Document type	Comment ; Journal Article
ZDB-ID	2054967-2
ISSN	1878-1551 ; 1534-5807
ISSN (online)	1878-1551
ISSN	1534-5807
DOI	10.1016/j.devcel.2014.04.032
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Article ; Online: Lowering pH enables duckweed (Lemna minor L.) growth on toxic concentrations of high-nutrient agricultural wastewater

Jones, Gruffydd / Scullion, John / Dalesman, Sarah / Robson, Paul / Gwynn-Jones, Dylan

Journal of Cleaner Production. 2023 Feb. 09, p.136392-

2023 , Page(s) 136392–

Abstract: The use of duckweed species to remediate nutrient-rich wastewater has grown as a field of research and in industry; however, the need to dilute wastewater to the low ammoniacal-N concentrations tolerated by duckweed represents a barrier to commercially ... ...

Abstract	The use of duckweed species to remediate nutrient-rich wastewater has grown as a field of research and in industry; however, the need to dilute wastewater to the low ammoniacal-N concentrations tolerated by duckweed represents a barrier to commercially implementing these systems in agriculture. This study investigated the potential for acidifying anaerobically digested cattle slurry (digestate), shifting the NH₄⁺:NH₃ equilibrium towards the less toxic ionised form, thus allowing the growth of Lemna minor on less dilute wastewater. First, a study was conducted to identify the ammoniacal-N concentrations tolerated by L. minor and to confirm the positive effect of lower pH on growth in high nutrient solutions using modified Hutner's solutions at two pH levels (8.2 and 6.5). In Hutner's solution at a pH of 8.2, L. minor growth was highest at the lowest ammoniacal-N concentration of 10 mg L⁻¹ and decreased with increasing concentrations. At a pH of 6.5, L. minor growth remained unaffected with increasing ammoniacal-N up to a concentration of 250 mg L⁻¹. L. minor was then grown in digestate concentrations ranging from 5% (65 mg L⁻¹ ammoniacal-N) to 30% (350 mg L⁻¹ ammoniacal-N), based on its growth in Hutner's solutions. It was hypothesised, that growth would decrease as the digestate concentration increased at pH 8.2, and that acidifying digestate to pH 6.5 would alleviate this effect. On unamended digestate (pH 8.2), L. minor growth was prevented even in the most dilute treatment (5%); however, on acidified digestate (pH 6.5), growth rates remained positive and significantly higher than the unamended controls up to the 20% dilution (239.3 mg L⁻¹ ammoniacal-N). Higher growth rates in the Hutner's solutions compared to digestate, particularly at pH 8.2 where no growth was recorded in digestate, suggest the presence of additional inhibitory factors in complex, high-nutrient wastewaters, and potentially sub-optimal concentrations of some of the nutrients provided in Hutner's solution. Nevertheless, correlation matrix analysis of digestate chemical properties highlighted the importance of acidification, with a strong negative correlation between pH and L. minor growth rate. For the first time, we demonstrate that by lowering pH, L. minor could be grown on dilutions of nutrient-rich agricultural wastewater that were otherwise toxic, and which make it feasible as a nutrient removal method. These findings could have important implications for implementing duckweed-based remediation systems in agriculture, increasing water- and land use efficiency, and thus, their commercial viability.
Keywords	Lemna minor ; acidification ; anaerobic digestion ; cattle manure ; industry ; ionization ; land use ; pH ; remediation ; toxicity ; wastewater ; Acidification” ; “Agriculture” ; “Ammonia” ; “” ; “digestate” ; “Lemna minor” ; “Phytoremediation”
Language	English
Dates of publication	2023-0209
Publishing place	Elsevier Ltd
Document type	Article ; Online
Note	Pre-press version
ISSN	0959-6526
DOI	10.1016/j.jclepro.2023.136392
Database	NAL-Catalogue (AGRICOLA)

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Article: The Effect of Red & Blue Rich LEDs vs Fluorescent Light on Lollo Rosso Lettuce Morphology and Physiology.

Cammarisano, Laura / Donnison, Iain S / Robson, Paul R H

Frontiers in plant science

2021 Volume 12, Page(s) 603411

Abstract: The challenges of feeding an increasing population, an increasingly urban population and within an increasingly challenging global environment have focused ideas on new ways to grow food. Growing food in a controlled environment (CE) is not new but new ... ...

Abstract	The challenges of feeding an increasing population, an increasingly urban population and within an increasingly challenging global environment have focused ideas on new ways to grow food. Growing food in a controlled environment (CE) is not new but new technologies such as broad-spectrum LEDs and robotics are generating new opportunities. Growth recipes can be tailored to plant species in a CE and plasticity in plant responses to the environment may be utilized to make growth systems more efficient for improved yield and crop quality. Light use efficiency within CE must consider energy requirements, yield and impacts on quality. We hypothesized that understanding how plants change their morphology and physiology in response to light will allow us to identify routes to make light more efficient for delivery of high-quality produce. We focused on responses to light in Lollo rosso lettuce which produces compact, crinkly and highly pigmented leaves. We compared the spectra of the commonly used artificial light sources in indoor farming (compact fluorescence tubes, FL, and broad-spectrum light-emitting diodes, LEDs) at two irradiance levels (270 and 570 μmol m
Language	English
Publishing date	2021-02-18
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2711035-7
ISSN	1664-462X
ISSN	1664-462X
DOI	10.3389/fpls.2021.603411
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Article: Improving field establishment and yield in seed propagated Miscanthus through manipulating plug size, sowing date and seedling age.

Ashman, Chris / Wilson, Rebecca / Mos, Michal / Clifton-Brown, John / Robson, Paul

Frontiers in plant science

2023 Volume 14, Page(s) 1095838

Abstract: Biomass crops provide significant potential to substitute for fossil fuels and mitigate against climate change. It is widely acknowledged that significant scale up of biomass crops is required to help reach net zero targets. ...

Abstract	Biomass crops provide significant potential to substitute for fossil fuels and mitigate against climate change. It is widely acknowledged that significant scale up of biomass crops is required to help reach net zero targets.
Language	English
Publishing date	2023-05-30
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2613694-6
ISSN	1664-462X
ISSN	1664-462X
DOI	10.3389/fpls.2023.1095838
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Article: Single-cell transcriptome analysis defines mesenchymal stromal cells in the mouse incisor dental pulp

Bayarsaihan, Dashzeveg / Enkhmandakh, Badam / Vijaykumar, Anushree / Robson, Paul / Mina, Mina

Gene expression patterns. 2022 Mar., v. 43

2022

Abstract: The dental pulp is known to be highly heterogenous, comprising distinct cell types including mesenchymal stromal cells (MSCs), which represent neural-crest-derived cells with the ability to differentiate into multiple cell lineages. However, the cellular ...

Abstract	The dental pulp is known to be highly heterogenous, comprising distinct cell types including mesenchymal stromal cells (MSCs), which represent neural-crest-derived cells with the ability to differentiate into multiple cell lineages. However, the cellular heterogeneity and the transcriptome signature of different cell clusters within the dental pulp remain to be established. To better understand discrete cell types, we applied a single-cell RNA sequencing strategy to establish the RNA expression profiles of individual dental pulp cells from 5- to 6-day-old mouse incisors. Our study revealed distinct subclasses of cells representing osteoblast, odontoblast, endothelial, pancreatic, neuronal, immune, pericyte and ameloblast lineages. Collectively, our research demonstrates the complexity and diversity of cell subclasses within the incisor dental pulp, thus providing a foundation for uncovering the molecular processes that govern cell fate decisions and lineage commitment in dental pulp-derived MSCs.
Keywords	RNA ; gene expression ; mice ; neurons ; osteoblasts ; tooth pulp ; transcriptome ; transcriptomics
Language	English
Dates of publication	2022-03
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	2058346-1
ISSN	1872-7298 ; 1567-133X
ISSN (online)	1872-7298
ISSN	1567-133X
DOI	10.1016/j.gep.2021.119228
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Zs.A 5515: Show issues

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Article: The Effects of Moderate and Severe Salinity on Composition and Physiology in the Biomass Crop

Stavridou, Evangelia / Webster, Richard J / Robson, Paul R H

Plants (Basel, Switzerland)

2020 Volume 9, Issue 10

Abstract: Saline land represents a growing resource that could be utilised for growing biomass crops, such ... ...

Abstract	Saline land represents a growing resource that could be utilised for growing biomass crops, such as
Language	English
Publishing date	2020-09-25
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2704341-1
ISSN	2223-7747
ISSN	2223-7747
DOI	10.3390/plants9101266
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Article: Producing Enhanced Yield and Nutritional Pigmentation in Lollo Rosso Through Manipulating the Irradiance, Duration, and Periodicity of LEDs in the Visible Region of Light.

Cammarisano, Laura / Donnison, Iain S / Robson, Paul R H

Frontiers in plant science

2020 Volume 11, Page(s) 598082

Abstract: Pigmented food are an important part of the human diet, and anthocyanins have demonstrable protection against tumor production in mouse models and beneficial effects on human liver chemistry. As such, producing pigmented crops is important for a ... ...

Abstract	Pigmented food are an important part of the human diet, and anthocyanins have demonstrable protection against tumor production in mouse models and beneficial effects on human liver chemistry. As such, producing pigmented crops is important for a nutritionally diverse diet. Lollo rosso lettuce is a fast-growing pigmented plant, is rich in phenolic compounds, and represents a suitable system to test optimization strategies for yield and anthocyanin production. High-energy UV wavebands are often used to stimulate increased pigmentation; however, we hypothesized that optimizing visible wavebands would deliver both yield and quality improvements. Growing Lollo rosso under irradiances between 5 and 180 W m
Language	English
Publishing date	2020-12-18
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2613694-6
ISSN	1664-462X
ISSN	1664-462X
DOI	10.3389/fpls.2020.598082
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Article: Controlled comparisons between soil and hydroponic systems reveal increased water use efficiency and higher lycopene and β-carotene contents in hydroponically grown tomatoes.

Verdoliva, Salvatore Gaetano / Gwyn-Jones, Dylan / Detheridge, Andrew / Robson, Paul

Scientia horticulturae

2021 Volume 279, Page(s) 109896

Abstract: There are many different types of systems used to grow food that are distinguished by ideology or the technology used. It is often difficult to directly compare yield and quality in different growth systems due to the complicated interactions between ... ...

Abstract	There are many different types of systems used to grow food that are distinguished by ideology or the technology used. It is often difficult to directly compare yield and quality in different growth systems due to the complicated interactions between genotype, physiology and environment. Many published comparisons do not identify and acknowledge confounding factors. However, there is urgency to undertake controlled comparisons to identify the most efficient and effective food production systems, because the world faces considerable challenges to food supply with population rise, ongoing environmental degradation and the threat of climatic change. Here we compared soil with two hydroponic growth systems, drip irrigation and deep-water culture (DWC). It is often claimed that such systems differ in water use, yield and crop quality; however, such comparisons are often confounded by assessing plant and system parameters in different growth environments or where factors that are difficult to standardise between systems, such as nutrient status, are not controlled. We grew tomato (
Language	English
Publishing date	2021-02-15
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	185557-8
ISSN	0304-4238
ISSN	0304-4238
DOI	10.1016/j.scienta.2021.109896
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