week 2 Flashcards

(49 cards)

1
Q

What are crop plants?

A

defined as any plants grown for economic reasons. This definition is broad and can include trees grown for economic purposes, not just typical field crops like wheat

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2
Q

What is domestication?

A

defined as a change in the morphological appearance of plants that fits the needs of the farmer. This change in appearance corresponds to an underlying change in the genetic makeup of the wild ancestor. Domestication is considered distinct from later genetic improvement which occurs after the crop has been domesticated in its centre of origin. While domestication involves changes to the plant genome by humans, it is not the same as Genetic Modification (GM), which has a specific legal definition usually involving in vitro steps or non-natural techniques, unlike the processes used during Neolithic domestication.

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3
Q

What were original modern humans like (hunter gatherers)?

A

Original modern humans were hunter-gatherers, who we can assume had a healthy diet but were likely subject to seasonal food shortages. The human population remained very small on the planet for a long time during this period

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4
Q

What about current humans like? (farmers)

A

largely transitioned from hunter-gatherers to farmers, which began about 10,000 years ago. Farmers started cultivating specific plant species, leading to a narrower diet but also surpluses that helped them survive winters. This shift enabled social stratification, hierarchical societies, and increased population size.

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5
Q

Why did we invent agriculture?

A

about 10,000 years ago. The consensus is that it was more of an opportunity than a forced necessity:

There was some climate change about 11,000 years ago, leading to drier conditions in some areas and more annual plants, which are ideal for agriculture.

It likely occurred in ecologically rich areas with a lot of species to choose from for domestication.

There was probably an abundance of wild seeds, tubers, or fibres that could be stored.

One hypothesis, called the rubbish heap hypothesis, suggests that people storing seeds and throwing them outside their settlement observed plants growing nearby, leading to the realisation that they could grow plants close by instead of walking long distances.

Although possibly starting as an opportunity, agriculture is thought to have become a one-way street, as food production now sustains the large global population, making a return to non-agricultural lifestyles impossible on a large scale.

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6
Q

Where did our crops come from?

A

different areas around the world, each domesticated by different populations, and most domestication events happened around the same time period, roughly 10,000 years ago (defined as 1950 BP + 10,000 years).

The Russian scientist Vavilov in 1926 proposed ideas to identify the centres of origin (areas where crops were first selected). He suggested that finding a wild relative in an area or observing large genetic variation for a specific crop in a region likely indicated a centre of origin. He also proposed using linguistic clues.

More recently, archaeology and DNA analysis play significant roles in identifying centres of origin. DNA analysis, in particular, has become very important for identifying where and when domestication occurred.

Examples of centres of origin include: Maize in Mexico, Yam and Potato in South America, Rice in Asia and Africa, Sunflower in parts of America, Wheat and Barley in the Fertile Crescent, and Banana in Indonesia.

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7
Q

How has agriculture changed over the last 100,000 years at various places on the planet? What were the patterns in domestication?

A

Domestication events occurred independently in different regions globally around the same time.

While most crops were domesticated in a single region, a few, like cotton, rice, and yams, were selected independently in more than one region.

Interestingly, in each region, similar types of plants were often selected. For example, cereals (deficient in lysine) and beans/pulses (deficient in methionine) were selected, suggesting early domesticators were aware of combining these for a balanced diet. Selection also occurred for fibres, fruits, and tubers in different areas.

After initial domestication, an estimated 6,000 crops were available, but many became extinct or remained confined to their centres of origin. A few crops took over large production zones, with about 30 crops now grown widely

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8
Q

What crops are we most dependent on? How much of the global food supply do they account for? Why does this create challenges?

A

dependent on a small number of crops to feed the growing population.

About 30 crops supply 90% of the energy we get from food.

Specifically, cereals like Maize, Rice, and Wheat constitute about 75% of crop production and account for 60% of the global food supply.

This dependence creates challenges for food security, biodiversity, and nutrition, highlighting the need for diversifying crops.

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9
Q

Where did the domestication of wheat and some other early crops begin?

A

In the Fertile Crescent — a relatively humid, grassland region including parts of modern-day Iraq, the Zagros Mountains, Syria, Jordan, and Israel.

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10
Q

Which cereal crops were first domesticated in the Fertile Crescent?

A

Einkorn wheat

Emmer wheat

Barley

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11
Q

How did modern bread wheat originate?

A

It likely originated from a spontaneous natural hybridization between domesticated Emmer wheat and a wild grass called wild goat grass.

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12
Q

What was one of the most significant changes in wheat during domestication?

A

The development of a non-shattering seed head, making seeds remain attached for easier harvesting.

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13
Q

How does seed shattering differ between wild and domesticated wheat?

A

Wild wheat: Seeds shatter and disperse easily at maturity.

Domesticated wheat: Seeds remain attached to the spike and require threshing.

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14
Q

What genetic mutation underlies the non-shattering trait?

A

A single mutation that prevents the formation of the abscission zone (the tissue that allows seeds to fall off).

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15
Q

Was the non-shattering mutation common in wild wheat populations?

A

No, it was rare, but early farmers selected for it because it made harvesting easier.

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16
Q

Besides non-shattering, what other traits changed during cereal domestication?

A

Reduced seed dormancy — domesticated cereals germinate more quickly and uniformly.

Loss of environmental germination delay — wild cereals stagger germination as an adaptation to uncertain conditions.

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17
Q

What is the term for the collective traits selected during domestication?

A

This group of traits is called the domestication syndrome.

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18
Q

How can archaeologists tell wild wheat from domesticated wheat in ancient sites?

A

By examining the scar at the base of the grain:

Smooth scar = wild grain (natural abscission).

Rough scar = domesticated grain (manually broken off).

Burned grains, often found in archaeological sites, preserve these features.

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19
Q

What did early genetic studies propose about wheat domestication?

A

That it occurred rapidly at a single geographic location, likely in the Karakadag region, based on phylogenetic analysis showing close genetic similarity between wild and domesticated Einkorn there.

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20
Q

What is the counterargument from archaeologists to the single-origin (monophyletic) model?

A

Archaeological findings suggest:

A gradual selection process.

Multiple locations showing mixed wild and domesticated wheat.

A temporal increase in domesticated traits over time, indicating a slow, diffuse domestication rather than a rapid, singular event.

21
Q

What are centres of origin and genetic diversity?

A

Centres of origin are regions where a crop was first domesticated and where its greatest genetic diversity is found.

These regions often still harbor wild ancestors and traditional landraces of the crop.

Wild ancestors are crucial sources of genetic traits that may have been lost during domestication or modern breeding.

Such traits include resistance to pests, diseases, drought, and other environmental stresses, which are valuable for crop improvement.

22
Q

Why is it important to study domestication?

A

Investigating the process of domestication helps scientists understand how plant traits (e.g., seed size, fruit shape, flowering time) have evolved under human selection.

It reveals the genetic and molecular mechanisms that control important phenotypes in crops.

These studies also provide insight into human history and cultural evolution, as plant domestication is closely linked to the development of agriculture and civilizations.

23
Q

What is the relevance of centres of origin in the context of genetically modified (GM) crops?

A

Knowing a crop’s centre of origin is important when planning the release of GM varieties.

One major ecological concern with GM crops is the risk of gene flow (cross-pollination) between GM crops and their wild relatives.

This gene flow can potentially introduce transgenes into wild populations, threatening genetic diversity and ecosystem stability.

Low-risk scenario: If GM crops are cultivated far from their centre of origin (e.g., GM maize grown in Europe, Africa, or Asia), where wild relatives are absent, the risk of cross-pollination is minimal or non-existent.

High-risk scenario: If GM crops are introduced into their centre of origin (e.g., GM maize in Mexico), where wild relatives and traditional varieties coexist, there is a significant risk of gene flow.

This can lead to the unintentional spread of transgenes, potentially reducing the genetic integrity and diversity of local landraces and wild populations.

Therefore, greater caution and regulatory oversight are needed when introducing GM crops in or near their centres of origin.

24
Q

What is seed shattering, and how does it differ between wild and domesticated wheat?

A

In wild wheat, seeds detach easily at maturity (shattering). Domesticated wheat seeds stay attached and must be threshed.

25
How is seed shattering identified in archaeological wheat grains?
By examining the scar at the base of the grain: Smooth scar = wild grain (abscission zone present) Rough scar = domesticated grain (broken off during harvest)
26
What is the equivalent trait in barley, and how does it differ between wild and domesticated types?
In barley, it’s referred to as brittle (wild) vs. non-brittle (domesticated): Wild barley seeds fall off at maturity. Domesticated barley seeds remain attached and need threshing.
27
What do gene cloning studies suggest about the origin of modern barley?
All modern barley cultivars have recessive mutations in either the BTR1 or BTR2 gene, suggesting two domestication centres: one with btr1 and another with btr2.
28
Explain in detail the role of BTR1 and BTR2 in barley domestication?
These genes control seed brittleness. They are close together on the chromosome and act as a single genetic locus. BTR1 is likely a membrane-bound receptor protein. BTR2 is likely a ligand protein that binds to BTR1. Together, they trigger the formation of the abscission zone. Mutations in either gene prevent this interaction, resulting in non-brittle (domesticated) seeds.
29
What kind of mutations were found in BTR1?
Examples include: A stop codon (premature termination of the protein) A single amino acid change affecting protein function
30
How do these mutations support the idea of independent domestication events?
Different early farming populations selected different mutations in different regions, supporting multiple origins of barley domestication.
31
When and from where did barley cultivation expand to Europe?
It began spreading from Turkey around 8,000 years ago, reaching the UK about 4,000 years ago.
32
How did the spread of agriculture expose barley to new environments?
As barley moved into Europe, it encountered different climates, such as variations in summer temperature, rainfall, and Köppen climate zones, requiring climatic adaptation.
33
How did barley spread into Europe by two different routes?
Route 1 (Mediterranean): Faster, steady spread through warm coastal climates. Route 2 (Northern/Continental): Slower, through the Balkans into Central and Northern Europe (e.g., Germany and the UK). Evidence shows long pauses in some regions (e.g., Hungarian plains for 800–1,000 years).
34
How did barley adapt to the cooler, wetter Northern European climate?
Wild and Middle Eastern barley flower early, triggered by increasing day length. In the UK, this would cause early flowering in cold conditions, leading to poor yield. Northern-adapted barley is non-responsive to day length, flowering later when conditions are more favorable.
35
What gene controls barley's flowering time?
The Ppd-H1 gene regulates flowering response to day length. Ppd-H1 (wild-type): Sensitive to day length → early flowering. ppd-H1 (mutant): Insensitive to day length → later flowering.
36
What is the genetic difference between Ppd-H1 and ppd-H1?
A single mutation differentiates them.
37
How were Ppd-H1 and ppd-H1 distributed in early European barley varieties?
A study of 170 landraces showed: Ppd-H1 (day-length sensitive) = common in southern Europe (Spain, Morocco). ppd-H1 (day-length insensitive) = common in northern Europe.
38
What does this distribution suggest about barley’s adaptation?
The spread and success of barley in northern regions depended on acquiring the ppd-H1 mutation, enabling flowering under local conditions.
39
Where did the ppd-H1 allele likely originate?
It is most similar to the allele found in wild barley from northern Iran.
40
Why is understanding flowering time adaptation important for the future?
If climates change but crop flowering times don’t adapt, yields may drop due to mismatched environmental conditions. This underscores the need to understand and manipulate genes like Ppd-H1 to help crops adapt to future climates.
41
What is de novo domestication?
It is the rapid domestication of a wild relative of a crop using modern techniques. Involves introducing known domestication mutations (from historic processes) into a wild plant. Aims to recreate domesticated traits in a few years rather than thousands. Enabled by genome editing tools, particularly CRISPR-Cas9. Considered a popular research area currently. Relies heavily on our understanding of crop trait genetics. Has limitations due to incomplete genetic knowledge and regulatory/public acceptance of genome editing.
42
What traits were selected during domestication of wild tomato (Solanum pimpinellifolium)?
Loss of day-length sensitivity (day-neutral flowering) Increased fruit number and size Synchronous fruit ripening
43
What useful traits does wild Solanum pimpinellifolium have?
High salt stress tolerance Resistance to bacterial spot disease
44
How has genome editing been used to domesticate wild tomato?
Researchers used CRISPR-Cas9 to add traits like bigger fruit and synchronous ripening to the wild tomato. Retained disease resistance and salt stress tolerance. Edited plants outperformed commercial lines under salt stress. However, fruit size increase was limited, showing gaps in genetic understanding of size traits.
45
What is the groundcherry and why is it challenging to cultivate?
A small-fruited orphan crop from Central/South America, grown for its sweet berries. Not suited for mechanised farming due to: Sprawling growth Small (~1g) fruits Fruits drop easily (abscission)
46
How was genome editing used to improve groundcherry?
Used knowledge from tomato genetics and CRISPR-Cas9. Targeted traits: Loss of abscission (fruits stay on plant) Optimised flowering time Loss of husk Determinate flowering (synchronous ripening) Successfully introduced: Increased flower number per node (1 → 3) Determinate growth, improving synchronised berry production
47
When does domestication end and crop improvement begin?
Domestication: Initial selection events that transformed wild species into crops at their centre of origin. Traits are shared across all cultivars (e.g., non-shattering seeds). Crop improvement: Later genetic changes to adapt crops to local environments or improve yield, resistance, etc. Example: ppd-H1 mutation in barley is an improvement, not part of original domestication.
48
What technologies are used in modern crop improvement?
Includes breeding, genetic modification (GM), and genome editing (GE). These are the latest forms of human-directed crop evolution.
49
Is domestication the same as GM?
No—domestication happened through natural or artificial selection over time. GM involves non-natural or in vitro techniques, with a specific legal definition.