Tag: Plant Breeding

An efficient method of gene downregulation, where gene expression is reduced but not completely knocked out, is useful for crop improvement. Here, Shen et al. have developed a system to achieve this, by using CRISPR/Cas9 to insert an element containing a Kozak sequence and an ATG start codon just before…

Wheat (Triticum aestivum) is an important crop, making up ~20% of food consumed worldwide. As the population grows, wheat yields must increase to meet demand. To achieve this, genetically diverse wheat landraces (aka traditional varieties, which are locally adapted cultivars) can be utilized. Here, Cheng…

Domesticated crops provide a reliable food source but generally have little genetic diversity to cope with environmental fluctuations. By decrypting the genome of wild species such as the wild rice Oryza rufipogon, we may identify additional genetic variation useful for breeding process. However, the…

Because much of the genetic diversity of our crops plants was lost during domestication, many breeding efforts endeavor to cross in resilience genes from wild relatives. An alternative approach is to rapidly domesticate those wild relatives themselves, for example by editing genes that affect flowering…

Widely and abundantly eaten tomatoes (Solanum lycopersicum) are delicious and nutritious, but the genetic diversity of cultivated tomatoes is quite narrow. In this review, Wang et al. give an overview of efforts to increase diversity, through introduction of genes from wild relatives and other approaches.…

As one of the most traded commodities in the world, coffee has cultural and economic impact that spans continents. The main source of coffee beans, Coffea arabica (Arabica), is a polyploid species that resulted from the hybridization between diploid C. canephora (Robusta) and C. eugenioides (Eugenioides).…

The domestication of cultivated strawberry (Fragaria × ananassa) traces back approximately 300 years, providing us with a relatively comprehensive genealogy of this artificial hybrid species. Strawberry yield in the US has increased by 2,755% since the 1960’s, largely owing to the California strawberry…

The defensive alkaloid gramine, present in barley and other grass species, plays an important role in protecting the plant from insect damage but poses challenges for ruminant palatability. Breeding strategies balance these factors by maintaining the protective function and making the grain palatable…

Type-IV glandular trichomes, which produce acylsugars, are effective deterrents against herbivory in Solanum, but they only persist in the juvenile stage of the cultivated tomato (S. lycopersicum). Therefore, these trichomes serve as a marker for the transition from juvenile to adult phases in developmental…

Sometimes more really is better, and I think it’s safe to say that when it comes to genomic information, more is better. Here, Raza et al. highlight the great value of super-pangenomes. A pan-genome is defined as the entire set of genes within a species, created by combining sequences of many individuals.…

Carrots were not always orange, and a new paper by Coe, Bostan, Rolling et al. sheds new light into the history of carrot domestication and improvement, i.e., how we went from white, knotty carrots to the orange, smooth ones that are now consumed all over the world. The authors published a new version…

A year ago, graduate student Merritt Khaipho-Burch Tweeted a reaction to an article about a gene described as enhancing yield, which led to lively on-line and in-the-lunchroom discussions about how to realistically measure yield, and, maybe more importantly, where to draw the line between potential and…

July brings delicious fruit harvests in the Northern Hemisphere, and a very special focus issue of Plant Physiology. I particularly like this issue because of the wide variety of species covered, starting with apple, banana, blueberry, cherry, citrus, and so on. It’s a nice departure from our usual…

Few topics are as inherently interesting from both fundamental and applied perspectives as salt tolerance in crop plants. From the basic science side, cells have several strategies that they use to keep Na+ levels low in their cytosol in spite of what can be a very steep concentration gradient from out…

The CRISPR/Cas system has become a popular genome editing (GEd) method in animals and plants, which allows very fine alterations in target genes and avoids the concerns that accompany introducing genes from other organisms. To improve food security and accelerate breeding. this technology has been applied…

Nuclear DNA is inherited from both parents during sexual reproduction, but organellar DNA is (usually) exclusively received from the mother. However, stable biparental inheritance of organellar DNA has also been reported in plants and animals but its molecular mechanism is unknown. Using quantitative…

Root system architecture (RSA) is a complex trait that directly or indirectly influences most aspects of plant survival, largely through its effects on nutrient and water uptake as well as support and anchoring. Its hidden nature has made it harder to study than the architecture of the shoot, and led…

I’m excited by the ways that knowledge about plant developmental and metabolic programs is being used to make new varieties of plants. This excellent review describes some of these applications such as changes in fruit size or seed number. De novo domestication is a specific type of application that…

Increasing nitrogen-use efficiency (NUE) and seed protein content are important for maize breeding. Modern maize hybrids have 6.5-16.5% seed protein content, while the wild ancestor of maize, called teosinte, has ~30% seed protein content. In addition, teosinte (accession Ames 21814) contains notably…

Artificial selection has significantly increased crop yield. However, this has come at the cost of compromising abiotic stress tolerance. Stomatal aperture has an important role in abiotic stress tolerance. Abiotic stress induces stomatal closure and involves the intracellular production of reactive…

Climate emergency and the increase of human population are challenges for human food security. Plant breeders use natural genetic variation to improve crops, but bread wheat (Triticum aestivum L.) has particularly low genetic diversity with unique evolutionary constraints. Genetic modification of spike…

How would you feel if you developed a plant that is tolerant to a particular stress stimulus and found out that it can also tolerate another stress? Bettgenhaeuser and found that this happened when plant breeders developed barley varieties resistant to the powdery mildew disease (caused by the fungal…

Breeding for flavor in fruits and vegetables is a dauting task. For several years, scientists have relied on consumer panels and instrumental analysis to make judgment calls on the flavor phenotype to select for during a breeding process. While these methods are often accurate and reliable, they are…

In plants with sexual reproduction, the male contribution (two sperm cells) is necessary to fertilize two female cells, the egg cell that gives rise to the embryo and the central cell that gives rise to the endosperm. In contrast, apomictic plants (0.1% of flowering plants spread over 120 genera) don´t…

In maize (Zea mays), loss of function mutations in genes involved in starch biosynthesis characterize sweet corn varieties that have increased sugar content in the kernel. Specifically, lines carrying the shrunken2 (sh2) allele revolutionized the corn industry in Northern America in the last 50 years…

During domestication of maize, one of the favorable traits was meristem size. Understanding the genetic circuit of maize meristem development and engineering for crop productivity are important from an agricultural perspective. In this article, Lie et al. used CRISPR-Cas9 to edit the promoter regions…

More than half of human calories come from rice, wheat, and corn, although many other cereals have been domesticated as food crops. Several of these “orphan” cereal crops and their wild relatives are being studied with the goal of diversifying our food supply, which is particularly important due…

Few fruits have a more distinctive color than strawberry (Fragaria spp). Anthocyanins are responsible for strawberry’s characteristic red pigmentation with variations in receptacle color caused by altered anthocyanin levels. While the flavonoid synthesis pathway accountable for anthocyanin accumulation…

In a rosette-forming plant like Arabidopsis, leaf radial angle is optimized to prevent self-shielding. By contrast, in a plant such as sorghum, leaf vertical angle affects self-shading. A “smart canopy” model has been proposed in which upper leaves have a more upright orientation to allow more light…

As heterotrophs, we are what we eat. One of the UN Sustainable Development Goals is to end all forms of hunger, including the “hidden hunger” that results from nutrient deficiencies. Van Der Straeten et al. provide an overview of biofortification strategies. They review current successes from…

This week’s announcement of the Nobel Prize in Chemistry being awarded to Emmanuelle Charpentier and Jennifer A. Doudna “for the development of a method for genome editing” comes as no surprise to many. CRISPR (clustered regularly interspaced short palindromic repeats)– Cas (CRISPR-associated…

Potato (Solanum tuberosum) is the third most important food crop worldwide. It is also a clonally propagated tetraploid, making progress in breeding genetically improved cultivars extremely difficult. Therefore, there are ongoing efforts to redomesticate potato from a tetraploid, tuber-propagated crop…

Gene mapping and QTL identification for the improvement of important traits have not been fully explored in an autopolyploid species like sweetpotatoes (2n=6x=90) due to its genetic complexity. Most sweet potato QTL mapping efforts have relied on models used for diploid species, leading to low density…

Biparental populations (BPPs) obtained by crossing two diverse inbred lines have long been used for dissecting the complex traits owing to their simplicity, ease of development and high power of detecting QTLs with a few hundred markers genotyped. Nonetheless, poor resolution and low genetic diversity…

Heterosis is phenomenon that occurs when crossbred individuals show qualities (such as such as size, growth rate, fertility, and yield) that are superior to those of both parents. In maize, heterosis can be explained in terms of hybrid vigor, and this has been well studied using traditional breeding.…

Parthenocarpy, or the ability to make fruit without fertilization, is desirable for many reasons including the opportunity to make seedless fruits and a greater resiliency in crop production in the face of climate change. Matsuo et al. identified a new gene involved in parthenocarpy, starting with a…

Ripened fruits attract animals to eat and disperse seeds, allowing propagation. Slowing down the fruit ripening process is often used commercially to decrease damage during transport and extend shelf life. Molecular (increased pigment, aroma, and flavor) and physiological (softened flesh) changes of…

Cotton (Gossypium spp.) provides the world’s most important natural fiber, and I suspect with our growing realization of the problems with plastics there will be still more demand for it. Yang et al. review the current state of Gossypium genomics. As a crop that has been domesticated for millennia,…

A cybrid is a cytoplasmic hybrid; in other words, a cell or organism in which the cytosolic genomes (mitochondria and plastid) have a different origin than the nuclear genome; the nuclear genome is inherited solely from the paternal parent, and the cytosolic genomes from the maternal parent. Starting…

The synthetic biology field is going to be important for the decade we began in order to face climate challenges, including food security. However, plant synthetic biology lags behind bacterial and other eukaryotic systems. Roell and Zurbriggen summarize in this review, many of the projects that are…

Crop diversity is fundamental to safeguarding global food security. The high-yielding, input-responsive cultivars developed post-green revolution led to the replacement of traditional landraces that harbour beneficial genes and alleles governing biotic and abiotic stress resistance and nutritional quality…

Following interspecific hybridization, one of the two parental genomes (aka subgenomes) tends to become dominant (more highly retained and expressed). What determines which of the subgenomes will become dominant, or is it random? To explore this question, Bird et al. made several crosses between Brassica…

A few traits are associated with domestication across many species. Eshed and Lippman provide an overview of the changes to plant stature and flowering time that have been repeatedly selected by our ancestors. By comparing the molecular underpinnings of these traits across crops, it becomes clear that…

Current and future food production demands a lot of nitrogen (N) fertilizers. Inefficient N fertilization leads to N losses to the environment and generates greenhouse gases that cause environmental problems. In a recent article, Swarbreck and colleagues discuss a strategy to develop crop varieties with…

Due to climate change, drought stress is threatening sunflower yield, and phenotypic diversity could be the solution. Here Hussain et al. studied the introgression of silver canopy traits related to lower excised leaf water loss (high cuticular waxes, intense hairiness, and smaller leaf area) from the…

Soybean [Glycine max (L.) Merr.] is a globally important high-protein crop, whose breeding is an ongoing, important objective for plant biologists. Since soybean is a short-day plant, controlling flowering time is a key step to influence its adaptation to diverse latitudes and farming system. Recently,…

The world demands food, plant scientists and breeders have the challenge of feeding a growing population. In a recent review Hickey et al. summarize the state-of-the-art technologies used for crop improvement. In use since 2003, ‘speed breeding’ is a set of improved methods for fast-tracking plant…

Wheat breeding programs are releasing new cultivars almost every year for improved yield potential. But is this intensive breeding not compromising the plant performance under adverse environmental conditions? Voss-Fels et al. studied the elite cultivars of winter wheat released during the last 50 years,…

The bearing habit refers to the location of flower buds in woody plants. For walnut cultivars, lateral bearing is preferred for its yield superiority. Deciphering its genetic architecture would improve seedling and sapling selection. Here, Aradhya et al. performed a SNP-based linkage map to estimate…

Barley leaf rust (Puccinia hordei) is a biotrophic fungus, in which mutations cause newly virulent races (pathothypes) with severe effects on cultivars. Marker-assisted Selection for Rph (Resistance to P. hordei) genes has been studied to provide sustainable control of this disease. Fazlikhani et al.…

Mango trees have been cultivated for approximately 4000 years which places their domestication in the same timeline as that of walnut, peach, sweet orange, lychee, citron, sweet orange, lemon, and jujube. Throughout the process of domestication, most crops undergo severe bottlenecks which decrease genetic…

The availability of marker-assisted systems is key for crop improvement, allowing trait selection by identifying consensus polymorphisms. However, for discriminating between related strains, these DNA markers are limited, time-consuming and expensive. Here, Tanaka et al. developed a RNA-Seq-based genotyping…

To fulfill global food demand in the near future, plant researchers keep pursuing simpler and faster crop breeding strategies. CRISPR/Cas systems have been developed as a powerful tool for plant genome editing. In this review, Chen et al. highlight in detail advances in CRISPR/Cas9 and its variants and…

The demand for plant-based products will increase and must be doubled in the near future. Therefore, there is need for technological advancements and skillsets in all fields related to agriculture to successfully produce more efficiently than now. What could be done to speed up production to meet the…

Seed number is a critical component of crop yield; the number of ovules determines the number of seeds. Ovule initiation in the carpel margin meristem (CMM) is controlled by genetic (i.e., AINTEGUMENTA, LEUNIG, SEUSS) and hormonal factors (auxins, cytokinins, gibberellins, and brassinosteroids). Most…

The seed sector, and particularly plant breeders, are responsible for providing farmers with new plant varieties able to overcome challenges such as climate change, water restrictions or plant pests. In order to do their job, breeders have a collection of tools at their disposal. Among these are traditional…

Accelerated development of improved plant varieties is imperative to meet the ever-growing needs in the agri-food sector. Breeding has been a durable solution for developing elite cultivars; however, the entire process is time-consuming and labor-intensive. Here, Watson et al. demonstrated how extending…

Sunflower (Helianthus annuus L.) is an important oil-producing crop, which was domisticated in North America about 4000 years ago with elite varities being developed through the 19th and 20th centuries, narrowing its genetic variation. It retains the ability to hybridize with wild relatives, providing…

In Romeo and Juliet, Shakespeare wrote, “that which we call a rose, by any other word would smell as sweet,” but the truth is, most roses today don’t smell as sweet as the ones Shakespeare described; selection for prolonged cut flower life has largely been at the expense of fragrance. Roccia seek…

You probably saw this article being discussed in your favorite news channel (in the UK, coverage spanned from the Daily Mail to the Guardian). In an Opinion article, Naves et al. discuss the genetics, biochemistry, ecology and health-benefits of capsaicinoids (the “heat” in chili pepper), and consider…

Wheat is a tough nut to crack, as it is hexaploid, comprising three diploid genomes (the A, B and D genomes). The International Wheat Genome Sequencing Consortium has released a fully-annotated wheat reference genome, and Ramírez-González et al. present a thorough analysis of its transcriptome. Although…

The appearance and growing importance of genetically engineered (GE) food, and the extensive resistance to it, raises many issues specific to this technology. Scott et al. analyze the bases of lay opposition to GE food and evidence for how attitudes change towards this topic. The authors indicate that…

New Phytol. One of the consequences of the green revolution has been the increasing dependence on few staple crops, which provide calories but often lack the right amount of micronutrients such as vitamins and minerals. The consequences are collectively called “hidden hunger” and concern not only…

In this excellent review, Lavarenne et al. provide an accessible introduction to the tools and objectives of gene regulatory network (GRN) analysis. They include a glossary, show diagrams displaying different stages of GRN analysis, and provide links to key papers in which different methods have been…

A new study published in The Plant Cell has isolated a gene controlling shape and size of spikelets in wheat. Materials provided by the John Innes Centre. A new study has isolated a gene controlling shape and size of spikelets in wheat in a breakthrough which could help breeders deliver yield…

Cell. The tomato plant has been of keen interest to mankind for centuries, and its domestication led to delicious fruits much larger than their wild, bitter-tasting ancestors. Domestication of tomato had many intended outcomes (increased fruit size, less bitter taste), and several unintended consequences.…

Fungal disease in wheat crops has been a serious but controllable problem, but a newer strain of what’s called “stem rust” has scientists worried. January 8, 2018 by Kerstin Hoppenhaus & Sibylle Grunze The video below is the first part in a six-part series examining the scourge of Ug99,…

Nat. Plants. The current rate of crop plant breeding, limited by the long generation time of crop plants, is insufficient to address the needs caused by the enormous increase in the human population accompanied by climate change. Watson et al. have recently presented a method called ‘Speed breeding’…

In future years, climate change may cause significant economic losses to countries worldwide. Consequently, genetic improvement of crops fit for drought-stressed and semi-arid regions is becoming a must. In this review, Crossa et al. assess the advances in genetic selection (GS) and genomic-enabled prediction…

The lack of acceptance of GM-breeding calls for alternative strategies to develop new crop varieties to feed the world's growing population. Moreover, the regulation of novel approaches for genome editing (CRISPR, TALEN) is still unclear and will potentially remain so for the near future (or will likely…

High throughput phenotyping (HTP) is a frontier in plant biology. Shakoor et al. review the state of HTP and various levels of implementation, current limitations, and the new horizons for the field. Envirotyping – getting all the information possible from an individual plant in a field to fully understand…

Cañas et al. study the relationships between maize leaf metabolism and grain yield to identify putative markers for breeding http://www.plantcell.org/content/29/5/919 By Rafael A. Cañas, Peter J. Lea and Bertrand Hirel In crops, several metabolic pathways are involved in the control of biomass…

Watson and Ghosh et al. describe protocols to accelerate the lifecycle of several crop species using "speed breeding", which essentially involves extending the daylength to 22 hours with supplemental lighting. They describe methods and results from glasshouse and growth chamber speed breeding. In spite…

Yield is determined by the crop’s genetic potential and the realization of that potential as affected by agronomic practices and environmental factors. Xu et al. address how yields can be improved through enhancing genetic gain, which they define as “the amount of increase in performance that is…

This week we spoke to Francisco Gomez and Ammani Kyanam, graduate students in the Soil and Crop Science Department at Texas A&M University, USA. They were part of the organizing committee for the recent Texas A&M Plant Breeding Symposium, a successful meeting run entirely by students at the University.   Could…

Most fruits form after pollination, making their production vulnerable to pollinator presence. Parthenocarpy is the development of fruit that occurs in the absence of pollination. Genes that enable parthenocarpy have been identified, including a tomato gene involved in auxin responses SlIAA9. Ueta et…